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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/NOISeq/spa_D vs. WT_L_2775_NOISeq_nnorm_prob.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/NOISeq/spa_D vs. WT_L_6665_NOISeq_rpkm_prob.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/NOISeq/spa_D vs. WT_L_6698_NOISeq_tmm_prob.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/NOISeq/spa_D vs. WT_L_7650_NOISeqbio_tmm_prob_seed_12345.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/NOISeq/spa_D vs. WT_L_8111_NOISeqbio_rpkm_prob_seed_12345.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/edgeR/spa_D vs. WT_L_12398_edgeR_fdr.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/spa_D_vs._WT_L_intersection_four_methods_6407.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/spa_D_vs._WT_L_intersection_four_methods_6407.tsv.filter_-1_1.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/spa_D_vs._WT_L_intersection_three_methods_6610.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_WT_L/spa_D_vs._WT_L_intersection_three_methods_6610.tsv.filter_-1_1.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/DEGpipe_spa_D vs. spa_L.log 0 → 100755
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[1] "set parameters:"
[1] "Counts file:/mnt/NAS_coruscant_datashare/haasf/madland_RNA-seq_Hoecker/31315.p.sort.counts"
[1] "Results stored at:/mnt/NAS_coruscant_datashare/haasf/madland_RNA-seq_Hoecker/DEGs_0.9"
[1] "SampleNames: spa_D" "SampleNames: spa_L"
[1] "LenGCTable: /mnt/NAS_coruscant_datashare/haasf/GeneAtlas_RNASeq/DEG_2nd_round/cosmoss_V3.3.release_2016-07-22.IsoformV31.fasta.length_GC_Contig_Daten_for_34840_1nd.csv"
[1] "myLenPos: 1"
[1] "myGCPos: 2"
[1] "rpkm: 0"
[1] "htseq: 0"
[1] "pvtedgeR: 0.001"
[1] "pvtDESeq2: 0.001"
[1] "pvtNOISeq: 0.9"
[1] "edgeRDir: edgeR"
[1] "DESeq2Dir: DESeq2"
[1] "NOISeqDir: NOISeq"
R version 4.0.5 (2021-03-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.2 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=de_DE.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=de_DE.UTF-8 LC_MESSAGES=en_US.UTF-8 LC_PAPER=de_DE.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=de_DE.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] splines parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] NOISeq_2.34.0 Matrix_1.3-3 vsn_3.58.0 gplots_3.1.1
[5] edgeR_3.32.1 limma_3.46.0 pals_1.7 gridExtra_2.3
[9] sjmisc_2.8.7 magick_2.7.2 pheatmap_1.0.12 RColorBrewer_1.1-2
[13] ggplot2_3.3.3 DESeq2_1.30.1 SummarizedExperiment_1.20.0 Biobase_2.50.0
[17] MatrixGenerics_1.2.1 matrixStats_0.58.0 GenomicRanges_1.42.0 GenomeInfoDb_1.26.7
[21] IRanges_2.24.1 S4Vectors_0.28.1 BiocGenerics_0.36.1
loaded via a namespace (and not attached):
[1] httr_1.4.2 maps_3.3.0 bit64_4.0.5 jsonlite_1.7.2 gtools_3.8.2
[6] BiocManager_1.30.15 affy_1.68.0 blob_1.2.1 GenomeInfoDbData_1.2.4 pillar_1.6.1
[11] RSQLite_2.2.7 lattice_0.20-44 glue_1.4.2 digest_0.6.27 XVector_0.30.0
[16] colorspace_2.0-1 preprocessCore_1.52.1 htmltools_0.5.1.1 XML_3.99-0.6 pkgconfig_2.0.3
[21] genefilter_1.72.1 zlibbioc_1.36.0 purrr_0.3.4 xtable_1.8-4 scales_1.1.1
[26] affyio_1.60.0 BiocParallel_1.24.1 tibble_3.1.2 annotate_1.68.0 generics_0.1.0
[31] farver_2.1.0 sjlabelled_1.1.8 ellipsis_0.3.2 withr_2.4.2 survival_3.2-11
[36] magrittr_2.0.1 crayon_1.4.1 memoise_2.0.0 tools_4.0.5 lifecycle_1.0.0
[41] munsell_0.5.0 locfit_1.5-9.4 DelayedArray_0.16.3 AnnotationDbi_1.52.0 compiler_4.0.5
[46] caTools_1.18.2 rlang_0.4.11 grid_4.0.5 RCurl_1.98-1.3 dichromat_2.0-0
[51] rstudioapi_0.13 htmlwidgets_1.5.3 crosstalk_1.1.1 bitops_1.0-7 labeling_0.4.2
[56] gtable_0.3.0 DBI_1.1.1 R6_2.5.0 knitr_1.33 dplyr_1.0.6
[61] bit_4.0.4 insight_0.14.0 KernSmooth_2.23-20 Rcpp_1.0.6 vctrs_0.3.8
[66] mapproj_1.2.7 geneplotter_1.68.0 tidyselect_1.1.1 xfun_0.23
sysname release
"Linux" "5.4.0-72-generic"
version nodename
"#80-Ubuntu SMP Mon Apr 12 17:35:00 UTC 2021" "Ben"
machine login
"x86_64" "haasf"
user effective_user
"haasf" "haasf"
[1] "spa_D" "spa_D.1" "spa_D.2" "spa_L" "spa_L.1" "spa_L.2"
spa_D spa_D.1 spa_D.2 spa_L spa_L.1 spa_L.2
Pp3c1_20V3.1 130 242 230 398 419 391
Pp3c1_40V3.1 119 467 237 114 101 142
Pp3c1_60V3.1 322 659 578 546 498 448
Pp3c1_70V3.1 314 564 470 407 449 484
Pp3c1_80V3.1 8 11 10 4 2 1
Pp3c1_100V3.1 537 778 805 760 603 872
[1] "Raw data row number: 31315"
[1] "Raw data column number: 6"
[1] "Filtered data row number: 19748"
[1] "Filtered data row number: 6"
[1] "edgeR is running with spa_D vs. spa_L"
[1] "DESeq2 is running with spa_D vs. spa_L"
[1] "NOISeq is running with spa_D vs. spa_L"
Filtering out low count features...
18993 features are to be kept for differential expression analysis with filtering method 1
[1] "GC content bias detection is to be computed for:"
[1] "spa_D" "spa_D.1" "spa_D.2" "spa_L" "spa_L.1" "spa_L.2"
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-62.576 -14.590 2.005 13.030 49.678
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 169.71 25.65 6.616 3.24e-09 ***
bx1 -112.35 36.28 -3.097 0.00266 **
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 352.66 3847.05 0.092 0.92718
bx5 -163.32 147.73 -1.106 0.27210
bx6 -48.37 38.58 -1.254 0.21348
bx7 72.34 29.41 2.460 0.01594 *
bx8 100.20 29.75 3.368 0.00114 **
bx9 50.89 37.46 1.358 0.17797
bx10 33.33 108.62 0.307 0.75976
bx11 -215.96 585.41 -0.369 0.71312
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 25.65 on 84 degrees of freedom
Multiple R-squared: 0.7271, Adjusted R-squared: 0.6978
F-statistic: 24.87 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_D.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-107.988 -24.688 3.843 24.431 95.013
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 219.1762 45.3372 4.834 5.96e-06 ***
bx1 -117.8741 64.1165 -1.838 0.0695 .
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 684.6573 6799.6258 0.101 0.9200
bx5 -200.2113 261.1117 -0.767 0.4454
bx6 -0.8716 68.1985 -0.013 0.9898
bx7 223.1675 51.9751 4.294 4.69e-05 ***
bx8 260.8377 52.5810 4.961 3.62e-06 ***
bx9 164.2348 66.2146 2.480 0.0151 *
bx10 28.8092 191.9925 0.150 0.8811
bx11 -241.4637 1034.7034 -0.233 0.8160
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 45.34 on 84 degrees of freedom
Multiple R-squared: 0.7438, Adjusted R-squared: 0.7164
F-statistic: 27.1 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_D.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-97.490 -22.508 4.125 19.252 77.492
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 212.96 39.96 5.329 8.16e-07 ***
bx1 -124.50 56.52 -2.203 0.030352 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 919.12 5993.82 0.153 0.878494
bx5 -219.93 230.17 -0.956 0.342062
bx6 -12.52 60.12 -0.208 0.835566
bx7 164.04 45.82 3.580 0.000573 ***
bx8 217.37 46.35 4.690 1.05e-05 ***
bx9 143.17 58.37 2.453 0.016240 *
bx10 30.60 169.24 0.181 0.856932
bx11 -162.43 912.08 -0.178 0.859087
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 39.96 on 84 degrees of freedom
Multiple R-squared: 0.7428, Adjusted R-squared: 0.7152
F-statistic: 26.95 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-159.02 -31.86 0.00 37.91 241.69
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 282.69 63.79 4.431 2.81e-05 ***
bx1 -209.99 90.22 -2.328 0.02234 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 1212.45 9567.68 0.127 0.89946
bx5 -295.86 367.41 -0.805 0.42294
bx6 -65.23 95.96 -0.680 0.49851
bx7 236.42 73.13 3.233 0.00175 **
bx8 331.07 73.99 4.475 2.38e-05 ***
bx9 557.10 93.17 5.979 5.27e-08 ***
bx10 4.43 270.15 0.016 0.98695
bx11 -831.08 1455.92 -0.571 0.56964
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 63.79 on 84 degrees of freedom
Multiple R-squared: 0.8256, Adjusted R-squared: 0.8069
F-statistic: 44.17 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_L.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-150.88 -30.38 0.00 34.90 229.45
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 288.25 60.52 4.763 7.89e-06 ***
bx1 -214.03 85.59 -2.501 0.0143 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 1359.03 9076.74 0.150 0.8813
bx5 -307.25 348.55 -0.882 0.3806
bx6 -78.10 91.04 -0.858 0.3934
bx7 218.17 69.38 3.144 0.0023 **
bx8 292.49 70.19 4.167 7.45e-05 ***
bx9 494.52 88.39 5.595 2.70e-07 ***
bx10 49.97 256.29 0.195 0.8459
bx11 -911.35 1381.21 -0.660 0.5112
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 60.52 on 84 degrees of freedom
Multiple R-squared: 0.818, Adjusted R-squared: 0.7985
F-statistic: 41.95 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_L.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-145.282 -28.409 1.247 28.310 216.934
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 262.32 55.99 4.685 1.07e-05 ***
bx1 -180.00 79.19 -2.273 0.025571 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 23.43 8397.93 0.003 0.997780
bx5 -225.11 322.49 -0.698 0.487083
bx6 -72.61 84.23 -0.862 0.391140
bx7 220.67 64.19 3.438 0.000915 ***
bx8 273.58 64.94 4.213 6.31e-05 ***
bx9 456.87 81.78 5.587 2.80e-07 ***
bx10 -11.44 237.12 -0.048 0.961642
bx11 -1075.21 1277.92 -0.841 0.402525
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 55.99 on 84 degrees of freedom
Multiple R-squared: 0.8118, Adjusted R-squared: 0.7917
F-statistic: 40.27 on 9 and 84 DF, p-value: < 2.2e-16
[1] "GC content bias detection is to be computed for:"
[1] "spa_D" "spa_L"
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-11.7443 -2.7222 0.4251 2.3558 9.4974
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 27.133 4.833 5.614 2.50e-07 ***
bx1 -16.345 6.835 -2.391 0.019026 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 83.149 724.890 0.115 0.908952
bx5 -26.349 27.836 -0.947 0.346569
bx6 -3.618 7.270 -0.498 0.620068
bx7 19.060 5.541 3.440 0.000908 ***
bx8 24.334 5.606 4.341 3.93e-05 ***
bx9 14.811 7.059 2.098 0.038897 *
bx10 4.211 20.468 0.206 0.837505
bx11 -28.349 110.307 -0.257 0.797804
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.833 on 84 degrees of freedom
Multiple R-squared: 0.7376, Adjusted R-squared: 0.7094
F-statistic: 26.23 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-13.7739 -2.7541 0.0718 3.1684 21.1240
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 25.065 5.420 4.625 1.35e-05 ***
bx1 -18.066 7.665 -2.357 0.02075 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 65.379 812.874 0.080 0.93609
bx5 -24.468 31.215 -0.784 0.43533
bx6 -6.557 8.153 -0.804 0.42352
bx7 20.287 6.213 3.265 0.00158 **
bx8 26.901 6.286 4.280 4.94e-05 ***
bx9 45.356 7.916 5.730 1.53e-07 ***
bx10 1.537 22.952 0.067 0.94676
bx11 -88.257 123.696 -0.713 0.47752
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 5.42 on 84 degrees of freedom
Multiple R-squared: 0.8185, Adjusted R-squared: 0.7991
F-statistic: 42.1 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-11.7443 -2.7222 0.4251 2.3558 9.4974
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 27.133 4.833 5.614 2.50e-07 ***
bx1 -16.345 6.835 -2.391 0.019026 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 83.149 724.890 0.115 0.908952
bx5 -26.349 27.836 -0.947 0.346569
bx6 -3.618 7.270 -0.498 0.620068
bx7 19.060 5.541 3.440 0.000908 ***
bx8 24.334 5.606 4.341 3.93e-05 ***
bx9 14.811 7.059 2.098 0.038897 *
bx10 4.211 20.468 0.206 0.837505
bx11 -28.349 110.307 -0.257 0.797804
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.833 on 84 degrees of freedom
Multiple R-squared: 0.7376, Adjusted R-squared: 0.7094
F-statistic: 26.23 on 9 and 84 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-13.7739 -2.7541 0.0718 3.1684 21.1240
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 25.065 5.420 4.625 1.35e-05 ***
bx1 -18.066 7.665 -2.357 0.02075 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 65.379 812.874 0.080 0.93609
bx5 -24.468 31.215 -0.784 0.43533
bx6 -6.557 8.153 -0.804 0.42352
bx7 20.287 6.213 3.265 0.00158 **
bx8 26.901 6.286 4.280 4.94e-05 ***
bx9 45.356 7.916 5.730 1.53e-07 ***
bx10 1.537 22.952 0.067 0.94676
bx11 -88.257 123.696 -0.713 0.47752
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 5.42 on 84 degrees of freedom
Multiple R-squared: 0.8185, Adjusted R-squared: 0.7991
F-statistic: 42.1 on 9 and 84 DF, p-value: < 2.2e-16
[1] "Length bias detection information is to be computed for:"
[1] "spa_D" "spa_D.1" "spa_D.2" "spa_L" "spa_L.1" "spa_L.2"
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-51.030 -14.277 -0.486 11.681 72.493
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 681.73 22.35 30.499 < 2e-16 ***
bx1 -655.50 31.20 -21.009 < 2e-16 ***
bx2 -600.53 32.39 -18.540 < 2e-16 ***
bx3 -467.19 28.03 -16.669 < 2e-16 ***
bx4 -532.90 25.33 -21.042 < 2e-16 ***
bx5 -433.61 25.36 -17.101 < 2e-16 ***
bx6 -447.05 26.82 -16.671 < 2e-16 ***
bx7 -345.99 30.56 -11.322 < 2e-16 ***
bx8 -356.74 41.34 -8.630 3.92e-13 ***
bx9 -240.75 86.05 -2.798 0.00641 **
bx10 -139.22 1103.81 -0.126 0.89994
bx11 1337.69 17948.76 0.075 0.94077
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 22.35 on 82 degrees of freedom
Multiple R-squared: 0.9392, Adjusted R-squared: 0.931
F-statistic: 115.1 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_D.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-87.966 -26.661 -1.538 22.267 126.062
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 1197.49 40.01 29.930 < 2e-16 ***
bx1 -1150.41 55.85 -20.599 < 2e-16 ***
bx2 -1070.12 57.98 -18.457 < 2e-16 ***
bx3 -821.76 50.17 -16.380 < 2e-16 ***
bx4 -927.17 45.33 -20.454 < 2e-16 ***
bx5 -749.14 45.39 -16.506 < 2e-16 ***
bx6 -771.94 48.00 -16.082 < 2e-16 ***
bx7 -603.35 54.70 -11.030 < 2e-16 ***
bx8 -611.24 73.99 -8.261 2.12e-12 ***
bx9 -400.98 154.02 -2.603 0.011 *
bx10 -664.67 1975.75 -0.336 0.737
bx11 9770.12 32127.08 0.304 0.762
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 40.01 on 82 degrees of freedom
Multiple R-squared: 0.9384, Adjusted R-squared: 0.9302
F-statistic: 113.7 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_D.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-78.088 -24.534 -1.877 19.557 117.050
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 959.77 35.51 27.028 < 2e-16 ***
bx1 -919.46 49.57 -18.550 < 2e-16 ***
bx2 -842.64 51.46 -16.375 < 2e-16 ***
bx3 -605.62 44.53 -13.602 < 2e-16 ***
bx4 -718.74 40.23 -17.865 < 2e-16 ***
bx5 -562.56 40.28 -13.965 < 2e-16 ***
bx6 -593.36 42.60 -13.928 < 2e-16 ***
bx7 -450.16 48.55 -9.272 2.07e-14 ***
bx8 -474.09 65.67 -7.219 2.40e-10 ***
bx9 -295.25 136.70 -2.160 0.0337 *
bx10 -340.82 1753.57 -0.194 0.8464
bx11 4069.38 28514.32 0.143 0.8869
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 35.51 on 82 degrees of freedom
Multiple R-squared: 0.9223, Adjusted R-squared: 0.9119
F-statistic: 88.47 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-107.217 -37.590 -0.172 32.911 198.595
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 865.59 58.42 14.816 < 2e-16 ***
bx1 -833.12 81.55 -10.216 2.79e-16 ***
bx2 -705.43 84.66 -8.332 1.53e-12 ***
bx3 -254.51 73.25 -3.474 0.000821 ***
bx4 -408.96 66.19 -6.179 2.38e-08 ***
bx5 -308.06 66.27 -4.648 1.26e-05 ***
bx6 -420.34 70.09 -5.997 5.18e-08 ***
bx7 -252.37 79.87 -3.160 0.002213 **
bx8 -388.07 108.04 -3.592 0.000558 ***
bx9 -54.15 224.90 -0.241 0.810319
bx10 -2213.49 2884.96 -0.767 0.445135
bx11 34766.71 46911.59 0.741 0.460743
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 58.42 on 82 degrees of freedom
Multiple R-squared: 0.713, Adjusted R-squared: 0.6745
F-statistic: 18.52 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_L.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-102.558 -36.015 -1.908 33.381 196.748
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 962.93 56.41 17.070 < 2e-16 ***
bx1 -932.51 78.74 -11.843 < 2e-16 ***
bx2 -795.06 81.75 -9.726 2.60e-15 ***
bx3 -373.37 70.73 -5.279 1.04e-06 ***
bx4 -541.69 63.91 -8.476 7.95e-13 ***
bx5 -431.59 63.99 -6.744 2.00e-09 ***
bx6 -539.23 67.68 -7.968 8.10e-12 ***
bx7 -363.74 77.12 -4.716 9.73e-06 ***
bx8 -471.98 104.32 -4.524 2.03e-05 ***
bx9 -138.27 217.16 -0.637 0.526
bx10 -2260.57 2785.69 -0.811 0.419
bx11 35211.66 45297.31 0.777 0.439
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 56.41 on 82 degrees of freedom
Multiple R-squared: 0.7542, Adjusted R-squared: 0.7212
F-statistic: 22.88 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_L.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-87.12 -30.39 0.00 24.06 145.87
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 929.20 46.04 20.184 < 2e-16 ***
bx1 -890.46 64.26 -13.857 < 2e-16 ***
bx2 -801.69 66.71 -12.017 < 2e-16 ***
bx3 -431.73 57.72 -7.479 7.44e-11 ***
bx4 -526.87 52.16 -10.101 4.71e-16 ***
bx5 -425.96 52.22 -8.157 3.42e-12 ***
bx6 -526.49 55.23 -9.533 6.29e-15 ***
bx7 -328.19 62.94 -5.214 1.35e-06 ***
bx8 -493.93 85.13 -5.802 1.19e-07 ***
bx9 -34.48 177.22 -0.195 0.846
bx10 -3115.96 2273.34 -1.371 0.174
bx11 48147.04 36966.21 1.302 0.196
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 46.04 on 82 degrees of freedom
Multiple R-squared: 0.8322, Adjusted R-squared: 0.8097
F-statistic: 36.97 on 11 and 82 DF, p-value: < 2.2e-16
[1] "Length bias detection information is to be computed for:"
[1] "spa_D" "spa_L"
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-9.5032 -2.7708 -0.1745 2.2404 13.7877
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 124.283 4.257 29.197 < 2e-16 ***
bx1 -119.335 5.942 -20.085 < 2e-16 ***
bx2 -109.884 6.168 -17.814 < 2e-16 ***
bx3 -83.115 5.337 -15.572 < 2e-16 ***
bx4 -95.561 4.823 -19.815 < 2e-16 ***
bx5 -76.661 4.829 -15.876 < 2e-16 ***
bx6 -79.597 5.107 -15.587 < 2e-16 ***
bx7 -61.427 5.820 -10.555 < 2e-16 ***
bx8 -63.353 7.872 -8.048 5.61e-12 ***
bx9 -41.445 16.386 -2.529 0.0133 *
bx10 -45.629 210.200 -0.217 0.8287
bx11 590.959 3418.001 0.173 0.8632
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.257 on 82 degrees of freedom
Multiple R-squared: 0.934, Adjusted R-squared: 0.9252
F-statistic: 105.6 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-8.988 -3.035 0.000 2.591 16.347
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 83.211 4.797 17.346 < 2e-16 ***
bx1 -80.149 6.696 -11.970 < 2e-16 ***
bx2 -69.554 6.952 -10.006 7.28e-16 ***
bx3 -32.294 6.015 -5.369 7.22e-07 ***
bx4 -44.760 5.435 -8.236 2.38e-12 ***
bx5 -35.343 5.442 -6.495 6.00e-09 ***
bx6 -45.029 5.755 -7.824 1.56e-11 ***
bx7 -28.647 6.558 -4.368 3.64e-05 ***
bx8 -40.998 8.871 -4.622 1.40e-05 ***
bx9 -7.093 18.466 -0.384 0.702
bx10 -229.308 236.887 -0.968 0.336
bx11 3579.726 3851.958 0.929 0.355
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.797 on 82 degrees of freedom
Multiple R-squared: 0.7706, Adjusted R-squared: 0.7399
F-statistic: 25.05 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-9.5032 -2.7708 -0.1745 2.2404 13.7877
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 124.283 4.257 29.197 < 2e-16 ***
bx1 -119.335 5.942 -20.085 < 2e-16 ***
bx2 -109.884 6.168 -17.814 < 2e-16 ***
bx3 -83.115 5.337 -15.572 < 2e-16 ***
bx4 -95.561 4.823 -19.815 < 2e-16 ***
bx5 -76.661 4.829 -15.876 < 2e-16 ***
bx6 -79.597 5.107 -15.587 < 2e-16 ***
bx7 -61.427 5.820 -10.555 < 2e-16 ***
bx8 -63.353 7.872 -8.048 5.61e-12 ***
bx9 -41.445 16.386 -2.529 0.0133 *
bx10 -45.629 210.200 -0.217 0.8287
bx11 590.959 3418.001 0.173 0.8632
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.257 on 82 degrees of freedom
Multiple R-squared: 0.934, Adjusted R-squared: 0.9252
F-statistic: 105.6 on 11 and 82 DF, p-value: < 2.2e-16
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-8.988 -3.035 0.000 2.591 16.347
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 83.211 4.797 17.346 < 2e-16 ***
bx1 -80.149 6.696 -11.970 < 2e-16 ***
bx2 -69.554 6.952 -10.006 7.28e-16 ***
bx3 -32.294 6.015 -5.369 7.22e-07 ***
bx4 -44.760 5.435 -8.236 2.38e-12 ***
bx5 -35.343 5.442 -6.495 6.00e-09 ***
bx6 -45.029 5.755 -7.824 1.56e-11 ***
bx7 -28.647 6.558 -4.368 3.64e-05 ***
bx8 -40.998 8.871 -4.622 1.40e-05 ***
bx9 -7.093 18.466 -0.384 0.702
bx10 -229.308 236.887 -0.968 0.336
bx11 3579.726 3851.958 0.929 0.355
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.797 on 82 degrees of freedom
Multiple R-squared: 0.7706, Adjusted R-squared: 0.7399
F-statistic: 25.05 on 11 and 82 DF, p-value: < 2.2e-16
[1] "Reference sample is: spa_D"
[1] "Confidence intervals for median of M:"
0.5% 99.5% Diagnostic Test
spa_D.1 "0.0254275658670867" "0.0348893333526657" "FAILED"
spa_D.2 "0.035953870566934" "0.0459628497071872" "FAILED"
spa_L "-0.117824367767901" "-0.0571385385026269" "FAILED"
spa_L.1 "-0.110658884006596" "-0.0547927476505588" "FAILED"
spa_L.2 "-0.0802389783537925" "-0.0286645413392735" "FAILED"
[1] "Diagnostic test: FAILED. Normalization is required to correct this bias."
[1] "WARNING: Your experiment has biological replicates. You should consider using NOISeqBIO instead of NOISeq."
[1] "Computing (M,D) values..."
[1] "Computing probability of differential expression..."
[1] "WARNING: Your experiment has biological replicates. You should consider using NOISeqBIO instead of NOISeq."
[1] "Computing (M,D) values..."
[1] "Computing probability of differential expression..."
[1] "WARNING: Your experiment has biological replicates. You should consider using NOISeqBIO instead of NOISeq."
[1] "Computing (M,D) values..."
[1] "Computing probability of differential expression..."
Computing Z values...
Filtering out low count features...
18346 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 6 10023 22 922 11 1553 1 226 106 27 61 330 554 4427 77
Resampling cluster...[1] 1
[1] 2
Size of 15 subclusters of cluster: 2
[1] 815 1012 292 329 607 532 374 703 571 712 1083 414 247 1775 557
[1] 3
[1] 4
[1] 5
[1] 6
Size of 15 subclusters of cluster: 6
[1] 193 96 7 157 103 96 152 139 150 59 80 119 114 73 15
[1] 7
[1] 8
[1] 9
[1] 10
[1] 11
[1] 12
[1] 13
[1] 14
Size of 15 subclusters of cluster: 14
[1] 210 491 166 115 208 254 531 407 142 295 236 240 402 458 272
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.113490581995846
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
0.0000 0.9036 0.9866 0.8837 0.9984 1.0000 647
Computing Z values...
Filtering out low count features...
18993 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 5308 391 1139 11 11 370 9971 68 209 1283 29 59 28 112 4
Resampling cluster...[1] 1
Size of 15 subclusters of cluster: 1
[1] 262 162 326 344 444 352 241 367 623 584 481 312 150 475 185
[1] 2
[1] 3
Size of 15 subclusters of cluster: 3
[1] 60 60 139 12 61 153 73 6 90 130 104 57 53 131 10
[1] 4
[1] 5
[1] 6
[1] 7
Size of 15 subclusters of cluster: 7
[1] 2050 223 532 1042 665 620 295 754 586 979 381 200 824 318 502
[1] 8
[1] 9
[1] 10
Size of 15 subclusters of cluster: 10
[1] 73 86 115 107 102 97 48 134 40 35 55 50 23 167 151
[1] 11
[1] 12
[1] 13
[1] 14
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.130087995829307
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.0000 0.8566 0.9763 0.8658 0.9978 1.0000
Computing Z values...
Filtering out low count features...
18993 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 1829 11 174 1415 8521 494 15 573 95 44 46 10 5444 106 216
Resampling cluster...[1] 1
Size of 15 subclusters of cluster: 1
[1] 107 159 172 205 99 178 27 92 56 151 173 93 219 38 60
[1] 2
[1] 3
[1] 4
Size of 15 subclusters of cluster: 4
[1] 121 59 162 29 196 130 73 76 81 117 25 48 129 117 52
[1] 5
Size of 15 subclusters of cluster: 5
[1] 693 896 289 121 327 185 507 597 2210 247 340 617 604 445 443
[1] 6
[1] 7
[1] 8
[1] 9
[1] 10
[1] 11
[1] 12
[1] 13
Size of 15 subclusters of cluster: 13
[1] 133 359 407 567 249 202 434 349 529 312 282 470 358 305 488
[1] 14
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.172181569946798
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.0000 0.7908 0.9590 0.8227 0.9967 1.0000
[1] "6749 differentially expressed features"
[1] "3210 differentially expressed features (up in first condition)"
[1] "3539 differentially expressed features (down in first condition)"
[1] "5284 differentially expressed features"
[1] "923 differentially expressed features (up in first condition)"
[1] "4361 differentially expressed features (down in first condition)"
[1] "5519 differentially expressed features"
[1] "8940 differentially expressed features"
[1] "3651 differentially expressed features"
[1] "5577 differentially expressed features"
[1] "5501 differentially expressed features"
[1] "8786 differentially expressed features"
[1] "13852 differentially expressed features"
[1] "6749 differentially expressed features"
[1] "11850 differentially expressed features"
[1] "5284 differentially expressed features"
[1] "5519 differentially expressed features"
[1] "3651 differentially expressed features"
[1] "DEGs edgeR"
[1] 10894
[1] "DEGs deseq2"
[1] 10293
[1] "DEGs noiseq"
[1] 5519
[1] "DEGs noiseqbio"
[1] 6749
[1] "DEGs intersection without direction check (four methods)"
[1] 5162
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1" "Pp3c1_900V3.1"
[8] "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1800V3.1"
[15] "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1"
[22] "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1"
[29] "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1"
[36] "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1" "Pp3c1_4600V3.1" "Pp3c1_4750V3.1"
[43] "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1" "Pp3c1_5800V3.1" "Pp3c1_5820V3.1"
[50] "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6450V3.1"
[57] "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6930V3.1" "Pp3c1_7030V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[64] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7710V3.1" "Pp3c1_7800V3.1" "Pp3c1_7810V3.1"
[71] "Pp3c1_7830V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1" "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1"
[78] "Pp3c1_8490V3.1" "Pp3c1_8530V3.1" "Pp3c1_8870V3.1" "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1"
[85] "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1" "Pp3c1_9790V3.1" "Pp3c1_9970V3.1" "Pp3c1_10000V3.1" "Pp3c1_10010V3.1"
[92] "Pp3c1_10080V3.1" "Pp3c1_10090V3.1" "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1"
[99] "Pp3c1_10570V3.1" "Pp3c1_10810V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1" "Pp3c1_11980V3.1"
[106] "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1" "Pp3c1_12810V3.1" "Pp3c1_12850V3.1"
[113] "Pp3c1_12860V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1" "Pp3c1_13430V3.1" "Pp3c1_13570V3.1" "Pp3c1_13670V3.1"
[120] "Pp3c1_13671V3.1" "Pp3c1_13830V3.1" "Pp3c1_13890V3.1" "Pp3c1_13910V3.1" "Pp3c1_13930V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1"
[127] "Pp3c1_14380V3.1" "Pp3c1_14740V3.1" "Pp3c1_14760V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1"
[134] "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1"
[141] "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1"
[148] "Pp3c1_16900V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1"
[155] "Pp3c1_18830V3.1" "Pp3c1_18860V3.1" "Pp3c1_18910V3.1" "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1"
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[176] "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1" "Pp3c1_22260V3.1" "Pp3c1_22360V3.1"
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[197] "Pp3c1_23600V3.1" "Pp3c1_23670V3.1" "Pp3c1_23750V3.1" "Pp3c1_23850V3.1" "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1"
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[239] "Pp3c1_29090V3.1" "Pp3c1_29300V3.1" "Pp3c1_29460V3.1" "Pp3c1_29500V3.1" "Pp3c1_29630V3.1" "Pp3c1_29650V3.1" "Pp3c1_29700V3.1"
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[267] "Pp3c1_32190V3.1" "Pp3c1_32200V3.1" "Pp3c1_32350V3.1" "Pp3c1_32440V3.1" "Pp3c1_32520V3.1" "Pp3c1_32740V3.1" "Pp3c1_32760V3.1"
[274] "Pp3c1_32910V3.1" "Pp3c1_32920V3.1" "Pp3c1_33030V3.1" "Pp3c1_33050V3.1" "Pp3c1_33120V3.1" "Pp3c1_33150V3.1" "Pp3c1_33300V3.1"
[281] "Pp3c1_33470V3.1" "Pp3c1_33480V3.1" "Pp3c1_33790V3.1" "Pp3c1_33830V3.1" "Pp3c1_34210V3.1" "Pp3c1_34240V3.1" "Pp3c1_34390V3.1"
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[687] "Pp3c3_1650V3.1" "Pp3c3_1740V3.1" "Pp3c3_1750V3.1" "Pp3c3_2240V3.1" "Pp3c3_2380V3.1" "Pp3c3_2620V3.1" "Pp3c3_2690V3.1"
[694] "Pp3c3_2730V3.1" "Pp3c3_2740V3.1" "Pp3c3_2820V3.1" "Pp3c3_2980V3.1" "Pp3c3_3070V3.1" "Pp3c3_3140V3.1" "Pp3c3_3200V3.1"
[701] "Pp3c3_3480V3.1" "Pp3c3_3490V3.1" "Pp3c3_4090V3.1" "Pp3c3_4100V3.1" "Pp3c3_4140V3.1" "Pp3c3_4160V3.1" "Pp3c3_4440V3.1"
[708] "Pp3c3_5410V3.1" "Pp3c3_5480V3.1" "Pp3c3_5540V3.1" "Pp3c3_5620V3.1" "Pp3c3_5650V3.1" "Pp3c3_5810V3.1" "Pp3c3_5910V3.1"
[715] "Pp3c3_5930V3.1" "Pp3c3_6370V3.1" "Pp3c3_6480V3.1" "Pp3c3_6880V3.1" "Pp3c3_7020V3.1" "Pp3c3_7040V3.1" "Pp3c3_7160V3.1"
[722] "Pp3c3_7180V3.1" "Pp3c3_7370V3.1" "Pp3c3_7440V3.1" "Pp3c3_7450V3.1" "Pp3c3_7460V3.1" "Pp3c3_7930V3.1" "Pp3c3_8340V3.1"
[729] "Pp3c3_8370V3.1" "Pp3c3_8490V3.1" "Pp3c3_8540V3.1" "Pp3c3_8580V3.1" "Pp3c3_8860V3.1" "Pp3c3_9350V3.1" "Pp3c3_9470V3.1"
[736] "Pp3c3_9640V3.1" "Pp3c3_9650V3.1" "Pp3c3_9740V3.1" "Pp3c3_9850V3.1" "Pp3c3_9950V3.1" "Pp3c3_9970V3.1" "Pp3c3_9990V3.1"
[743] "Pp3c3_10220V3.1" "Pp3c3_10340V3.1" "Pp3c3_10539V3.1" "Pp3c3_10560V3.1" "Pp3c3_10730V3.1" "Pp3c3_10800V3.1" "Pp3c3_10900V3.1"
[750] "Pp3c3_11090V3.1" "Pp3c3_11140V3.1" "Pp3c3_11210V3.1" "Pp3c3_11230V3.1" "Pp3c3_11650V3.1" "Pp3c3_11690V3.1" "Pp3c3_11770V3.1"
[757] "Pp3c3_11830V3.1" "Pp3c3_11840V3.1" "Pp3c3_11932V3.1" "Pp3c3_12000V3.1" "Pp3c3_12020V3.1" "Pp3c3_12090V3.1" "Pp3c3_12310V3.1"
[764] "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1"
[771] "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1" "Pp3c3_14130V3.1" "Pp3c3_14139V3.1" "Pp3c3_14260V3.1"
[778] "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14920V3.1" "Pp3c3_14930V3.1" "Pp3c3_14940V3.1" "Pp3c3_15000V3.1"
[785] "Pp3c3_15010V3.1" "Pp3c3_15190V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1"
[792] "Pp3c3_15820V3.1" "Pp3c3_16290V3.1" "Pp3c3_16780V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17110V3.1" "Pp3c3_17120V3.1"
[799] "Pp3c3_17207V3.1" "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1" "Pp3c3_17920V3.1" "Pp3c3_17950V3.1"
[806] "Pp3c3_17970V3.1" "Pp3c3_18090V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1" "Pp3c3_18960V3.1" "Pp3c3_19080V3.1"
[813] "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1" "Pp3c3_19580V3.1" "Pp3c3_19590V3.1" "Pp3c3_19710V3.1" "Pp3c3_19750V3.1"
[820] "Pp3c3_19970V3.1" "Pp3c3_20110V3.1" "Pp3c3_20130V3.1" "Pp3c3_20140V3.1" "Pp3c3_20220V3.1" "Pp3c3_20370V3.1" "Pp3c3_20390V3.1"
[827] "Pp3c3_20400V3.1" "Pp3c3_20410V3.1" "Pp3c3_20660V3.1" "Pp3c3_20980V3.1" "Pp3c3_21020V3.1" "Pp3c3_21640V3.1" "Pp3c3_21670V3.1"
[834] "Pp3c3_21790V3.1" "Pp3c3_22090V3.1" "Pp3c3_22160V3.1" "Pp3c3_22320V3.1" "Pp3c3_22420V3.1" "Pp3c3_22480V3.1" "Pp3c3_22750V3.1"
[841] "Pp3c3_22810V3.1" "Pp3c3_23220V3.1" "Pp3c3_23240V3.1" "Pp3c3_23250V3.1" "Pp3c3_23290V3.1" "Pp3c3_23320V3.1" "Pp3c3_23340V3.1"
[848] "Pp3c3_23410V3.1" "Pp3c3_23430V3.1" "Pp3c3_23680V3.1" "Pp3c3_23880V3.1" "Pp3c3_23910V3.1" "Pp3c3_23940V3.1" "Pp3c3_23990V3.1"
[855] "Pp3c3_24030V3.1" "Pp3c3_24130V3.1" "Pp3c3_24530V3.1" "Pp3c3_24664V3.1" "Pp3c3_24970V3.1" "Pp3c3_25080V3.1" "Pp3c3_25400V3.1"
[862] "Pp3c3_25700V3.1" "Pp3c3_25940V3.1" "Pp3c3_26120V3.1" "Pp3c3_26340V3.1" "Pp3c3_26370V3.1" "Pp3c3_26400V3.1" "Pp3c3_26500V3.1"
[869] "Pp3c3_26520V3.1" "Pp3c3_26540V3.1" "Pp3c3_26770V3.1" "Pp3c3_26890V3.1" "Pp3c3_26910V3.1" "Pp3c3_26950V3.1" "Pp3c3_27000V3.1"
[876] "Pp3c3_27030V3.1" "Pp3c3_27280V3.1" "Pp3c3_27450V3.1" "Pp3c3_27480V3.1" "Pp3c3_27570V3.1" "Pp3c3_27750V3.1" "Pp3c3_27940V3.1"
[883] "Pp3c3_28000V3.1" "Pp3c3_28040V3.1" "Pp3c3_28050V3.1" "Pp3c3_28140V3.1" "Pp3c3_28180V3.1" "Pp3c3_28310V3.1" "Pp3c3_28590V3.1"
[890] "Pp3c3_28810V3.1" "Pp3c3_29480V3.1" "Pp3c3_29970V3.1" "Pp3c3_30120V3.1" "Pp3c3_30140V3.1" "Pp3c3_30150V3.1" "Pp3c3_30330V3.1"
[897] "Pp3c3_30340V3.1" "Pp3c3_30620V3.1" "Pp3c3_30710V3.1" "Pp3c3_30960V3.1" "Pp3c3_30990V3.1" "Pp3c3_31010V3.1" "Pp3c3_31110V3.1"
[904] "Pp3c3_31260V3.1" "Pp3c3_31460V3.1" "Pp3c3_31720V3.1" "Pp3c3_31840V3.1" "Pp3c3_31900V3.1" "Pp3c3_32100V3.1" "Pp3c3_32230V3.1"
[911] "Pp3c3_32300V3.1" "Pp3c3_32330V3.1" "Pp3c3_32390V3.1" "Pp3c3_32420V3.1" "Pp3c3_32490V3.1" "Pp3c3_32640V3.1" "Pp3c3_32670V3.1"
[918] "Pp3c3_32790V3.1" "Pp3c3_32860V3.1" "Pp3c3_33210V3.1" "Pp3c3_33270V3.1" "Pp3c3_33330V3.1" "Pp3c3_33400V3.1" "Pp3c3_33440V3.1"
[925] "Pp3c3_33470V3.1" "Pp3c3_33940V3.1" "Pp3c3_34180V3.1" "Pp3c3_34260V3.1" "Pp3c3_34440V3.1" "Pp3c3_34460V3.1" "Pp3c3_34580V3.1"
[932] "Pp3c3_34790V3.1" "Pp3c3_35020V3.1" "Pp3c3_35080V3.1" "Pp3c3_35180V3.1" "Pp3c3_35290V3.1" "Pp3c3_35390V3.1" "Pp3c3_35520V3.1"
[939] "Pp3c3_35620V3.1" "Pp3c3_35720V3.1" "Pp3c3_36660V3.1" "Pp3c3_36760V3.1" "Pp3c3_37020V3.1" "Pp3c3_37260V3.1" "Pp3c3_37390V3.1"
[946] "Pp3c3_37400V3.1" "Pp3c3_37490V3.1" "Pp3c3_37800V3.1" "Pp3c3_37820V3.1" "Pp3c3_37880V3.1" "Pp3c3_37890V3.1" "Pp3c3_38080V3.1"
[953] "Pp3c3_38124V3.1" "Pp3c3_38130V3.1" "Pp3c3_38210V3.1" "Pp3c4_140V3.1" "Pp3c4_270V3.1" "Pp3c4_770V3.1" "Pp3c4_810V3.1"
[960] "Pp3c4_880V3.1" "Pp3c4_1020V3.1" "Pp3c4_1040V3.1" "Pp3c4_1180V3.1" "Pp3c4_1261V3.1" "Pp3c4_1320V3.1" "Pp3c4_1490V3.1"
[967] "Pp3c4_1850V3.1" "Pp3c4_1870V3.1" "Pp3c4_2260V3.1" "Pp3c4_3100V3.1" "Pp3c4_3170V3.1" "Pp3c4_3190V3.1" "Pp3c4_3450V3.1"
[974] "Pp3c4_3490V3.1" "Pp3c4_3520V3.1" "Pp3c4_3530V3.1" "Pp3c4_3550V3.1" "Pp3c4_3650V3.1" "Pp3c4_3720V3.1" "Pp3c4_3730V3.1"
[981] "Pp3c4_3920V3.1" "Pp3c4_3930V3.1" "Pp3c4_3950V3.1" "Pp3c4_4130V3.1" "Pp3c4_4220V3.1" "Pp3c4_4230V3.1" "Pp3c4_4360V3.1"
[988] "Pp3c4_4420V3.1" "Pp3c4_4730V3.1" "Pp3c4_4820V3.1" "Pp3c4_4910V3.1" "Pp3c4_5090V3.1" "Pp3c4_5170V3.1" "Pp3c4_5260V3.1"
[995] "Pp3c4_5410V3.1" "Pp3c4_5680V3.1" "Pp3c4_5690V3.1" "Pp3c4_6120V3.1" "Pp3c4_6260V3.1" "Pp3c4_6340V3.1"
[ reached getOption("max.print") -- omitted 4162 entries ]
[1] "DEGs intersection with direction check"
[1] 5162
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1" "Pp3c1_900V3.1"
[8] "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1800V3.1"
[15] "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1"
[22] "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1"
[29] "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1"
[36] "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1" "Pp3c1_4600V3.1" "Pp3c1_4750V3.1"
[43] "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1" "Pp3c1_5800V3.1" "Pp3c1_5820V3.1"
[50] "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6450V3.1"
[57] "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6930V3.1" "Pp3c1_7030V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[64] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7710V3.1" "Pp3c1_7800V3.1" "Pp3c1_7810V3.1"
[71] "Pp3c1_7830V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1" "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1"
[78] "Pp3c1_8490V3.1" "Pp3c1_8530V3.1" "Pp3c1_8870V3.1" "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1"
[85] "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1" "Pp3c1_9790V3.1" "Pp3c1_9970V3.1" "Pp3c1_10000V3.1" "Pp3c1_10010V3.1"
[92] "Pp3c1_10080V3.1" "Pp3c1_10090V3.1" "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1"
[99] "Pp3c1_10570V3.1" "Pp3c1_10810V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1" "Pp3c1_11980V3.1"
[106] "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1" "Pp3c1_12810V3.1" "Pp3c1_12850V3.1"
[113] "Pp3c1_12860V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1" "Pp3c1_13430V3.1" "Pp3c1_13570V3.1" "Pp3c1_13670V3.1"
[120] "Pp3c1_13671V3.1" "Pp3c1_13830V3.1" "Pp3c1_13890V3.1" "Pp3c1_13910V3.1" "Pp3c1_13930V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1"
[127] "Pp3c1_14380V3.1" "Pp3c1_14740V3.1" "Pp3c1_14760V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1"
[134] "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1"
[141] "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1"
[148] "Pp3c1_16900V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1"
[155] "Pp3c1_18830V3.1" "Pp3c1_18860V3.1" "Pp3c1_18910V3.1" "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1"
[162] "Pp3c1_19240V3.1" "Pp3c1_19370V3.1" "Pp3c1_20310V3.1" "Pp3c1_20690V3.1" "Pp3c1_20960V3.1" "Pp3c1_21160V3.1" "Pp3c1_21200V3.1"
[169] "Pp3c1_21230V3.1" "Pp3c1_21270V3.1" "Pp3c1_21360V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1" "Pp3c1_21650V3.1" "Pp3c1_21730V3.1"
[176] "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1" "Pp3c1_22260V3.1" "Pp3c1_22360V3.1"
[183] "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22560V3.1" "Pp3c1_22590V3.1" "Pp3c1_22640V3.1" "Pp3c1_22950V3.1"
[190] "Pp3c1_23010V3.1" "Pp3c1_23040V3.1" "Pp3c1_23190V3.1" "Pp3c1_23260V3.1" "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1"
[197] "Pp3c1_23600V3.1" "Pp3c1_23670V3.1" "Pp3c1_23750V3.1" "Pp3c1_23850V3.1" "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1"
[204] "Pp3c1_24000V3.1" "Pp3c1_24120V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1" "Pp3c1_24600V3.1" "Pp3c1_24790V3.1" "Pp3c1_25000V3.1"
[211] "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1" "Pp3c1_25410V3.1" "Pp3c1_25450V3.1" "Pp3c1_25750V3.1" "Pp3c1_25770V3.1"
[218] "Pp3c1_25850V3.1" "Pp3c1_25920V3.1" "Pp3c1_25940V3.1" "Pp3c1_26270V3.1" "Pp3c1_26720V3.1" "Pp3c1_26730V3.1" "Pp3c1_26740V3.1"
[225] "Pp3c1_26780V3.1" "Pp3c1_27020V3.1" "Pp3c1_27160V3.1" "Pp3c1_27440V3.1" "Pp3c1_27990V3.1" "Pp3c1_28370V3.1" "Pp3c1_28390V3.1"
[232] "Pp3c1_28430V3.1" "Pp3c1_28480V3.1" "Pp3c1_28680V3.1" "Pp3c1_28690V3.1" "Pp3c1_28750V3.1" "Pp3c1_29030V3.1" "Pp3c1_29070V3.1"
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[764] "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1"
[771] "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1" "Pp3c3_14130V3.1" "Pp3c3_14139V3.1" "Pp3c3_14260V3.1"
[778] "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14920V3.1" "Pp3c3_14930V3.1" "Pp3c3_14940V3.1" "Pp3c3_15000V3.1"
[785] "Pp3c3_15010V3.1" "Pp3c3_15190V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1"
[792] "Pp3c3_15820V3.1" "Pp3c3_16290V3.1" "Pp3c3_16780V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17110V3.1" "Pp3c3_17120V3.1"
[799] "Pp3c3_17207V3.1" "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1" "Pp3c3_17920V3.1" "Pp3c3_17950V3.1"
[806] "Pp3c3_17970V3.1" "Pp3c3_18090V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1" "Pp3c3_18960V3.1" "Pp3c3_19080V3.1"
[813] "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1" "Pp3c3_19580V3.1" "Pp3c3_19590V3.1" "Pp3c3_19710V3.1" "Pp3c3_19750V3.1"
[820] "Pp3c3_19970V3.1" "Pp3c3_20110V3.1" "Pp3c3_20130V3.1" "Pp3c3_20140V3.1" "Pp3c3_20220V3.1" "Pp3c3_20370V3.1" "Pp3c3_20390V3.1"
[827] "Pp3c3_20400V3.1" "Pp3c3_20410V3.1" "Pp3c3_20660V3.1" "Pp3c3_20980V3.1" "Pp3c3_21020V3.1" "Pp3c3_21640V3.1" "Pp3c3_21670V3.1"
[834] "Pp3c3_21790V3.1" "Pp3c3_22090V3.1" "Pp3c3_22160V3.1" "Pp3c3_22320V3.1" "Pp3c3_22420V3.1" "Pp3c3_22480V3.1" "Pp3c3_22750V3.1"
[841] "Pp3c3_22810V3.1" "Pp3c3_23220V3.1" "Pp3c3_23240V3.1" "Pp3c3_23250V3.1" "Pp3c3_23290V3.1" "Pp3c3_23320V3.1" "Pp3c3_23340V3.1"
[848] "Pp3c3_23410V3.1" "Pp3c3_23430V3.1" "Pp3c3_23680V3.1" "Pp3c3_23880V3.1" "Pp3c3_23910V3.1" "Pp3c3_23940V3.1" "Pp3c3_23990V3.1"
[855] "Pp3c3_24030V3.1" "Pp3c3_24130V3.1" "Pp3c3_24530V3.1" "Pp3c3_24664V3.1" "Pp3c3_24970V3.1" "Pp3c3_25080V3.1" "Pp3c3_25400V3.1"
[862] "Pp3c3_25700V3.1" "Pp3c3_25940V3.1" "Pp3c3_26120V3.1" "Pp3c3_26340V3.1" "Pp3c3_26370V3.1" "Pp3c3_26400V3.1" "Pp3c3_26500V3.1"
[869] "Pp3c3_26520V3.1" "Pp3c3_26540V3.1" "Pp3c3_26770V3.1" "Pp3c3_26890V3.1" "Pp3c3_26910V3.1" "Pp3c3_26950V3.1" "Pp3c3_27000V3.1"
[876] "Pp3c3_27030V3.1" "Pp3c3_27280V3.1" "Pp3c3_27450V3.1" "Pp3c3_27480V3.1" "Pp3c3_27570V3.1" "Pp3c3_27750V3.1" "Pp3c3_27940V3.1"
[883] "Pp3c3_28000V3.1" "Pp3c3_28040V3.1" "Pp3c3_28050V3.1" "Pp3c3_28140V3.1" "Pp3c3_28180V3.1" "Pp3c3_28310V3.1" "Pp3c3_28590V3.1"
[890] "Pp3c3_28810V3.1" "Pp3c3_29480V3.1" "Pp3c3_29970V3.1" "Pp3c3_30120V3.1" "Pp3c3_30140V3.1" "Pp3c3_30150V3.1" "Pp3c3_30330V3.1"
[897] "Pp3c3_30340V3.1" "Pp3c3_30620V3.1" "Pp3c3_30710V3.1" "Pp3c3_30960V3.1" "Pp3c3_30990V3.1" "Pp3c3_31010V3.1" "Pp3c3_31110V3.1"
[904] "Pp3c3_31260V3.1" "Pp3c3_31460V3.1" "Pp3c3_31720V3.1" "Pp3c3_31840V3.1" "Pp3c3_31900V3.1" "Pp3c3_32100V3.1" "Pp3c3_32230V3.1"
[911] "Pp3c3_32300V3.1" "Pp3c3_32330V3.1" "Pp3c3_32390V3.1" "Pp3c3_32420V3.1" "Pp3c3_32490V3.1" "Pp3c3_32640V3.1" "Pp3c3_32670V3.1"
[918] "Pp3c3_32790V3.1" "Pp3c3_32860V3.1" "Pp3c3_33210V3.1" "Pp3c3_33270V3.1" "Pp3c3_33330V3.1" "Pp3c3_33400V3.1" "Pp3c3_33440V3.1"
[925] "Pp3c3_33470V3.1" "Pp3c3_33940V3.1" "Pp3c3_34180V3.1" "Pp3c3_34260V3.1" "Pp3c3_34440V3.1" "Pp3c3_34460V3.1" "Pp3c3_34580V3.1"
[932] "Pp3c3_34790V3.1" "Pp3c3_35020V3.1" "Pp3c3_35080V3.1" "Pp3c3_35180V3.1" "Pp3c3_35290V3.1" "Pp3c3_35390V3.1" "Pp3c3_35520V3.1"
[939] "Pp3c3_35620V3.1" "Pp3c3_35720V3.1" "Pp3c3_36660V3.1" "Pp3c3_36760V3.1" "Pp3c3_37020V3.1" "Pp3c3_37260V3.1" "Pp3c3_37390V3.1"
[946] "Pp3c3_37400V3.1" "Pp3c3_37490V3.1" "Pp3c3_37800V3.1" "Pp3c3_37820V3.1" "Pp3c3_37880V3.1" "Pp3c3_37890V3.1" "Pp3c3_38080V3.1"
[953] "Pp3c3_38124V3.1" "Pp3c3_38130V3.1" "Pp3c3_38210V3.1" "Pp3c4_140V3.1" "Pp3c4_270V3.1" "Pp3c4_770V3.1" "Pp3c4_810V3.1"
[960] "Pp3c4_880V3.1" "Pp3c4_1020V3.1" "Pp3c4_1040V3.1" "Pp3c4_1180V3.1" "Pp3c4_1261V3.1" "Pp3c4_1320V3.1" "Pp3c4_1490V3.1"
[967] "Pp3c4_1850V3.1" "Pp3c4_1870V3.1" "Pp3c4_2260V3.1" "Pp3c4_3100V3.1" "Pp3c4_3170V3.1" "Pp3c4_3190V3.1" "Pp3c4_3450V3.1"
[974] "Pp3c4_3490V3.1" "Pp3c4_3520V3.1" "Pp3c4_3530V3.1" "Pp3c4_3550V3.1" "Pp3c4_3650V3.1" "Pp3c4_3720V3.1" "Pp3c4_3730V3.1"
[981] "Pp3c4_3920V3.1" "Pp3c4_3930V3.1" "Pp3c4_3950V3.1" "Pp3c4_4130V3.1" "Pp3c4_4220V3.1" "Pp3c4_4230V3.1" "Pp3c4_4360V3.1"
[988] "Pp3c4_4420V3.1" "Pp3c4_4730V3.1" "Pp3c4_4820V3.1" "Pp3c4_4910V3.1" "Pp3c4_5090V3.1" "Pp3c4_5170V3.1" "Pp3c4_5260V3.1"
[995] "Pp3c4_5410V3.1" "Pp3c4_5680V3.1" "Pp3c4_5690V3.1" "Pp3c4_6120V3.1" "Pp3c4_6260V3.1" "Pp3c4_6340V3.1"
[ reached getOption("max.print") -- omitted 4162 entries ]
[1] "DEGs edgeR"
[1] 10894
[1] "DEGs deseq2"
[1] 10293
[1] "DEGs noiseq"
[1] 5519
[1] "DEGs noiseqbio"
[1] 6749
[1] "DEGs intersection without direction check (three methods)"
[1] 5429
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1" "Pp3c1_900V3.1"
[8] "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1800V3.1"
[15] "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1"
[22] "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1"
[29] "Pp3c1_3210V3.1" "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1"
[36] "Pp3c1_3730V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1"
[43] "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1"
[50] "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1"
[57] "Pp3c1_6360V3.1" "Pp3c1_6450V3.1" "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6930V3.1" "Pp3c1_7030V3.1" "Pp3c1_7360V3.1"
[64] "Pp3c1_7370V3.1" "Pp3c1_7380V3.1" "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7710V3.1"
[71] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1" "Pp3c1_8110V3.1"
[78] "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8210V3.1" "Pp3c1_8490V3.1" "Pp3c1_8530V3.1" "Pp3c1_8870V3.1" "Pp3c1_8890V3.1"
[85] "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1" "Pp3c1_9790V3.1"
[92] "Pp3c1_9970V3.1" "Pp3c1_10000V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1" "Pp3c1_10100V3.1" "Pp3c1_10220V3.1"
[99] "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10810V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1"
[106] "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1" "Pp3c1_11980V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1"
[113] "Pp3c1_12630V3.1" "Pp3c1_12790V3.1" "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1"
[120] "Pp3c1_13308V3.1" "Pp3c1_13430V3.1" "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13830V3.1" "Pp3c1_13890V3.1"
[127] "Pp3c1_13910V3.1" "Pp3c1_13930V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14380V3.1" "Pp3c1_14740V3.1" "Pp3c1_14760V3.1"
[134] "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1"
[141] "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1" "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1"
[148] "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1" "Pp3c1_16900V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1"
[155] "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1" "Pp3c1_18830V3.1" "Pp3c1_18860V3.1" "Pp3c1_18910V3.1"
[162] "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1" "Pp3c1_19240V3.1" "Pp3c1_19370V3.1" "Pp3c1_20280V3.1"
[169] "Pp3c1_20310V3.1" "Pp3c1_20610V3.1" "Pp3c1_20690V3.1" "Pp3c1_20770V3.1" "Pp3c1_20960V3.1" "Pp3c1_21160V3.1" "Pp3c1_21200V3.1"
[176] "Pp3c1_21230V3.1" "Pp3c1_21270V3.1" "Pp3c1_21290V3.1" "Pp3c1_21360V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1" "Pp3c1_21650V3.1"
[183] "Pp3c1_21730V3.1" "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_21920V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1"
[190] "Pp3c1_22260V3.1" "Pp3c1_22360V3.1" "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22540V3.1" "Pp3c1_22560V3.1"
[197] "Pp3c1_22590V3.1" "Pp3c1_22640V3.1" "Pp3c1_22950V3.1" "Pp3c1_23010V3.1" "Pp3c1_23040V3.1" "Pp3c1_23190V3.1" "Pp3c1_23260V3.1"
[204] "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1" "Pp3c1_23600V3.1" "Pp3c1_23670V3.1" "Pp3c1_23750V3.1" "Pp3c1_23850V3.1"
[211] "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1" "Pp3c1_24000V3.1" "Pp3c1_24120V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1"
[218] "Pp3c1_24600V3.1" "Pp3c1_24790V3.1" "Pp3c1_24820V3.1" "Pp3c1_25000V3.1" "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1"
[225] "Pp3c1_25410V3.1" "Pp3c1_25450V3.1" "Pp3c1_25750V3.1" "Pp3c1_25770V3.1" "Pp3c1_25850V3.1" "Pp3c1_25920V3.1" "Pp3c1_25940V3.1"
[232] "Pp3c1_26200V3.1" "Pp3c1_26270V3.1" "Pp3c1_26720V3.1" "Pp3c1_26730V3.1" "Pp3c1_26740V3.1" "Pp3c1_26780V3.1" "Pp3c1_27020V3.1"
[239] "Pp3c1_27160V3.1" "Pp3c1_27440V3.1" "Pp3c1_27830V3.1" "Pp3c1_27990V3.1" "Pp3c1_28350V3.1" "Pp3c1_28370V3.1" "Pp3c1_28390V3.1"
[246] "Pp3c1_28430V3.1" "Pp3c1_28480V3.1" "Pp3c1_28680V3.1" "Pp3c1_28690V3.1" "Pp3c1_28750V3.1" "Pp3c1_29030V3.1" "Pp3c1_29070V3.1"
[253] "Pp3c1_29090V3.1" "Pp3c1_29300V3.1" "Pp3c1_29460V3.1" "Pp3c1_29500V3.1" "Pp3c1_29630V3.1" "Pp3c1_29650V3.1" "Pp3c1_29700V3.1"
[260] "Pp3c1_29710V3.1" "Pp3c1_29770V3.1" "Pp3c1_29970V3.1" "Pp3c1_30080V3.1" "Pp3c1_30090V3.1" "Pp3c1_30150V3.1" "Pp3c1_30400V3.1"
[267] "Pp3c1_30570V3.1" "Pp3c1_30620V3.1" "Pp3c1_30790V3.1" "Pp3c1_30960V3.1" "Pp3c1_30990V3.1" "Pp3c1_31250V3.1" "Pp3c1_31280V3.1"
[274] "Pp3c1_31440V3.1" "Pp3c1_31540V3.1" "Pp3c1_31630V3.1" "Pp3c1_31720V3.1" "Pp3c1_31850V3.1" "Pp3c1_31930V3.1" "Pp3c1_32070V3.1"
[281] "Pp3c1_32090V3.1" "Pp3c1_32170V3.1" "Pp3c1_32190V3.1" "Pp3c1_32200V3.1" "Pp3c1_32350V3.1" "Pp3c1_32440V3.1" "Pp3c1_32520V3.1"
[288] "Pp3c1_32740V3.1" "Pp3c1_32760V3.1" "Pp3c1_32910V3.1" "Pp3c1_32920V3.1" "Pp3c1_33030V3.1" "Pp3c1_33050V3.1" "Pp3c1_33120V3.1"
[295] "Pp3c1_33150V3.1" "Pp3c1_33300V3.1" "Pp3c1_33440V3.1" "Pp3c1_33470V3.1" "Pp3c1_33480V3.1" "Pp3c1_33790V3.1" "Pp3c1_33830V3.1"
[302] "Pp3c1_34210V3.1" "Pp3c1_34240V3.1" "Pp3c1_34390V3.1" "Pp3c1_34400V3.1" "Pp3c1_34410V3.1" "Pp3c1_35100V3.1" "Pp3c1_35120V3.1"
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[834] "Pp3c3_16280V3.1" "Pp3c3_16290V3.1" "Pp3c3_16780V3.1" "Pp3c3_16880V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17110V3.1"
[841] "Pp3c3_17120V3.1" "Pp3c3_17207V3.1" "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1" "Pp3c3_17920V3.1"
[848] "Pp3c3_17950V3.1" "Pp3c3_17970V3.1" "Pp3c3_18090V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1" "Pp3c3_18960V3.1"
[855] "Pp3c3_19080V3.1" "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1" "Pp3c3_19580V3.1" "Pp3c3_19590V3.1" "Pp3c3_19710V3.1"
[862] "Pp3c3_19750V3.1" "Pp3c3_19970V3.1" "Pp3c3_20110V3.1" "Pp3c3_20130V3.1" "Pp3c3_20140V3.1" "Pp3c3_20220V3.1" "Pp3c3_20370V3.1"
[869] "Pp3c3_20390V3.1" "Pp3c3_20400V3.1" "Pp3c3_20410V3.1" "Pp3c3_20660V3.1" "Pp3c3_20980V3.1" "Pp3c3_21020V3.1" "Pp3c3_21570V3.1"
[876] "Pp3c3_21640V3.1" "Pp3c3_21670V3.1" "Pp3c3_21750V3.1" "Pp3c3_21790V3.1" "Pp3c3_21830V3.1" "Pp3c3_22090V3.1" "Pp3c3_22160V3.1"
[883] "Pp3c3_22320V3.1" "Pp3c3_22420V3.1" "Pp3c3_22480V3.1" "Pp3c3_22750V3.1" "Pp3c3_22810V3.1" "Pp3c3_23220V3.1" "Pp3c3_23240V3.1"
[890] "Pp3c3_23250V3.1" "Pp3c3_23290V3.1" "Pp3c3_23320V3.1" "Pp3c3_23340V3.1" "Pp3c3_23410V3.1" "Pp3c3_23430V3.1" "Pp3c3_23680V3.1"
[897] "Pp3c3_23880V3.1" "Pp3c3_23910V3.1" "Pp3c3_23940V3.1" "Pp3c3_23990V3.1" "Pp3c3_24030V3.1" "Pp3c3_24130V3.1" "Pp3c3_24530V3.1"
[904] "Pp3c3_24664V3.1" "Pp3c3_24970V3.1" "Pp3c3_25080V3.1" "Pp3c3_25400V3.1" "Pp3c3_25700V3.1" "Pp3c3_25940V3.1" "Pp3c3_26120V3.1"
[911] "Pp3c3_26340V3.1" "Pp3c3_26370V3.1" "Pp3c3_26400V3.1" "Pp3c3_26420V3.1" "Pp3c3_26500V3.1" "Pp3c3_26520V3.1" "Pp3c3_26540V3.1"
[918] "Pp3c3_26770V3.1" "Pp3c3_26890V3.1" "Pp3c3_26910V3.1" "Pp3c3_26950V3.1" "Pp3c3_27000V3.1" "Pp3c3_27030V3.1" "Pp3c3_27280V3.1"
[925] "Pp3c3_27450V3.1" "Pp3c3_27480V3.1" "Pp3c3_27570V3.1" "Pp3c3_27750V3.1" "Pp3c3_27940V3.1" "Pp3c3_28000V3.1" "Pp3c3_28040V3.1"
[932] "Pp3c3_28050V3.1" "Pp3c3_28140V3.1" "Pp3c3_28180V3.1" "Pp3c3_28310V3.1" "Pp3c3_28590V3.1" "Pp3c3_28810V3.1" "Pp3c3_29480V3.1"
[939] "Pp3c3_29970V3.1" "Pp3c3_30120V3.1" "Pp3c3_30140V3.1" "Pp3c3_30150V3.1" "Pp3c3_30330V3.1" "Pp3c3_30340V3.1" "Pp3c3_30620V3.1"
[946] "Pp3c3_30710V3.1" "Pp3c3_30960V3.1" "Pp3c3_30990V3.1" "Pp3c3_31010V3.1" "Pp3c3_31110V3.1" "Pp3c3_31260V3.1" "Pp3c3_31460V3.1"
[953] "Pp3c3_31720V3.1" "Pp3c3_31840V3.1" "Pp3c3_31900V3.1" "Pp3c3_32100V3.1" "Pp3c3_32230V3.1" "Pp3c3_32300V3.1" "Pp3c3_32330V3.1"
[960] "Pp3c3_32390V3.1" "Pp3c3_32420V3.1" "Pp3c3_32490V3.1" "Pp3c3_32640V3.1" "Pp3c3_32670V3.1" "Pp3c3_32790V3.1" "Pp3c3_32860V3.1"
[967] "Pp3c3_33160V3.1" "Pp3c3_33210V3.1" "Pp3c3_33270V3.1" "Pp3c3_33330V3.1" "Pp3c3_33400V3.1" "Pp3c3_33440V3.1" "Pp3c3_33470V3.1"
[974] "Pp3c3_33940V3.1" "Pp3c3_34180V3.1" "Pp3c3_34260V3.1" "Pp3c3_34440V3.1" "Pp3c3_34460V3.1" "Pp3c3_34580V3.1" "Pp3c3_34790V3.1"
[981] "Pp3c3_35020V3.1" "Pp3c3_35080V3.1" "Pp3c3_35180V3.1" "Pp3c3_35290V3.1" "Pp3c3_35330V3.1" "Pp3c3_35390V3.1" "Pp3c3_35520V3.1"
[988] "Pp3c3_35620V3.1" "Pp3c3_35720V3.1" "Pp3c3_36210V3.1" "Pp3c3_36660V3.1" "Pp3c3_36760V3.1" "Pp3c3_37020V3.1" "Pp3c3_37200V3.1"
[995] "Pp3c3_37260V3.1" "Pp3c3_37390V3.1" "Pp3c3_37400V3.1" "Pp3c3_37490V3.1" "Pp3c3_37800V3.1" "Pp3c3_37820V3.1"
[ reached getOption("max.print") -- omitted 4429 entries ]
[1] "DEGs intersection with direction check"
[1] 5429
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1" "Pp3c1_900V3.1"
[8] "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1800V3.1"
[15] "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1"
[22] "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1"
[29] "Pp3c1_3210V3.1" "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1"
[36] "Pp3c1_3730V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1"
[43] "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1"
[50] "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1"
[57] "Pp3c1_6360V3.1" "Pp3c1_6450V3.1" "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6930V3.1" "Pp3c1_7030V3.1" "Pp3c1_7360V3.1"
[64] "Pp3c1_7370V3.1" "Pp3c1_7380V3.1" "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7710V3.1"
[71] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1" "Pp3c1_8110V3.1"
[78] "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8210V3.1" "Pp3c1_8490V3.1" "Pp3c1_8530V3.1" "Pp3c1_8870V3.1" "Pp3c1_8890V3.1"
[85] "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1" "Pp3c1_9790V3.1"
[92] "Pp3c1_9970V3.1" "Pp3c1_10000V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1" "Pp3c1_10100V3.1" "Pp3c1_10220V3.1"
[99] "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10810V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1"
[106] "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1" "Pp3c1_11980V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1"
[113] "Pp3c1_12630V3.1" "Pp3c1_12790V3.1" "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1"
[120] "Pp3c1_13308V3.1" "Pp3c1_13430V3.1" "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13830V3.1" "Pp3c1_13890V3.1"
[127] "Pp3c1_13910V3.1" "Pp3c1_13930V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14380V3.1" "Pp3c1_14740V3.1" "Pp3c1_14760V3.1"
[134] "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1"
[141] "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1" "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1"
[148] "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1" "Pp3c1_16900V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1"
[155] "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1" "Pp3c1_18830V3.1" "Pp3c1_18860V3.1" "Pp3c1_18910V3.1"
[162] "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1" "Pp3c1_19240V3.1" "Pp3c1_19370V3.1" "Pp3c1_20280V3.1"
[169] "Pp3c1_20310V3.1" "Pp3c1_20610V3.1" "Pp3c1_20690V3.1" "Pp3c1_20770V3.1" "Pp3c1_20960V3.1" "Pp3c1_21160V3.1" "Pp3c1_21200V3.1"
[176] "Pp3c1_21230V3.1" "Pp3c1_21270V3.1" "Pp3c1_21290V3.1" "Pp3c1_21360V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1" "Pp3c1_21650V3.1"
[183] "Pp3c1_21730V3.1" "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_21920V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1"
[190] "Pp3c1_22260V3.1" "Pp3c1_22360V3.1" "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22540V3.1" "Pp3c1_22560V3.1"
[197] "Pp3c1_22590V3.1" "Pp3c1_22640V3.1" "Pp3c1_22950V3.1" "Pp3c1_23010V3.1" "Pp3c1_23040V3.1" "Pp3c1_23190V3.1" "Pp3c1_23260V3.1"
[204] "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1" "Pp3c1_23600V3.1" "Pp3c1_23670V3.1" "Pp3c1_23750V3.1" "Pp3c1_23850V3.1"
[211] "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1" "Pp3c1_24000V3.1" "Pp3c1_24120V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1"
[218] "Pp3c1_24600V3.1" "Pp3c1_24790V3.1" "Pp3c1_24820V3.1" "Pp3c1_25000V3.1" "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1"
[225] "Pp3c1_25410V3.1" "Pp3c1_25450V3.1" "Pp3c1_25750V3.1" "Pp3c1_25770V3.1" "Pp3c1_25850V3.1" "Pp3c1_25920V3.1" "Pp3c1_25940V3.1"
[232] "Pp3c1_26200V3.1" "Pp3c1_26270V3.1" "Pp3c1_26720V3.1" "Pp3c1_26730V3.1" "Pp3c1_26740V3.1" "Pp3c1_26780V3.1" "Pp3c1_27020V3.1"
[239] "Pp3c1_27160V3.1" "Pp3c1_27440V3.1" "Pp3c1_27830V3.1" "Pp3c1_27990V3.1" "Pp3c1_28350V3.1" "Pp3c1_28370V3.1" "Pp3c1_28390V3.1"
[246] "Pp3c1_28430V3.1" "Pp3c1_28480V3.1" "Pp3c1_28680V3.1" "Pp3c1_28690V3.1" "Pp3c1_28750V3.1" "Pp3c1_29030V3.1" "Pp3c1_29070V3.1"
[253] "Pp3c1_29090V3.1" "Pp3c1_29300V3.1" "Pp3c1_29460V3.1" "Pp3c1_29500V3.1" "Pp3c1_29630V3.1" "Pp3c1_29650V3.1" "Pp3c1_29700V3.1"
[260] "Pp3c1_29710V3.1" "Pp3c1_29770V3.1" "Pp3c1_29970V3.1" "Pp3c1_30080V3.1" "Pp3c1_30090V3.1" "Pp3c1_30150V3.1" "Pp3c1_30400V3.1"
[267] "Pp3c1_30570V3.1" "Pp3c1_30620V3.1" "Pp3c1_30790V3.1" "Pp3c1_30960V3.1" "Pp3c1_30990V3.1" "Pp3c1_31250V3.1" "Pp3c1_31280V3.1"
[274] "Pp3c1_31440V3.1" "Pp3c1_31540V3.1" "Pp3c1_31630V3.1" "Pp3c1_31720V3.1" "Pp3c1_31850V3.1" "Pp3c1_31930V3.1" "Pp3c1_32070V3.1"
[281] "Pp3c1_32090V3.1" "Pp3c1_32170V3.1" "Pp3c1_32190V3.1" "Pp3c1_32200V3.1" "Pp3c1_32350V3.1" "Pp3c1_32440V3.1" "Pp3c1_32520V3.1"
[288] "Pp3c1_32740V3.1" "Pp3c1_32760V3.1" "Pp3c1_32910V3.1" "Pp3c1_32920V3.1" "Pp3c1_33030V3.1" "Pp3c1_33050V3.1" "Pp3c1_33120V3.1"
[295] "Pp3c1_33150V3.1" "Pp3c1_33300V3.1" "Pp3c1_33440V3.1" "Pp3c1_33470V3.1" "Pp3c1_33480V3.1" "Pp3c1_33790V3.1" "Pp3c1_33830V3.1"
[302] "Pp3c1_34210V3.1" "Pp3c1_34240V3.1" "Pp3c1_34390V3.1" "Pp3c1_34400V3.1" "Pp3c1_34410V3.1" "Pp3c1_35100V3.1" "Pp3c1_35120V3.1"
[309] "Pp3c1_35170V3.1" "Pp3c1_35260V3.1" "Pp3c1_35321V3.1" "Pp3c1_35330V3.1" "Pp3c1_35410V3.1" "Pp3c1_35460V3.1" "Pp3c1_35630V3.1"
[316] "Pp3c1_35820V3.1" "Pp3c1_35990V3.1" "Pp3c1_36000V3.1" "Pp3c1_36070V3.1" "Pp3c1_36080V3.1" "Pp3c1_36100V3.1" "Pp3c1_36129V3.1"
[323] "Pp3c1_36270V3.1" "Pp3c1_36390V3.1" "Pp3c1_36410V3.1" "Pp3c1_36440V3.1" "Pp3c1_36580V3.1" "Pp3c1_37980V3.1" "Pp3c1_38210V3.1"
[330] "Pp3c1_38250V3.1" "Pp3c1_38600V3.1" "Pp3c1_38630V3.1" "Pp3c1_38770V3.1" "Pp3c1_38880V3.1" "Pp3c1_38950V3.1" "Pp3c1_38960V3.1"
[337] "Pp3c1_39100V3.1" "Pp3c1_39210V3.1" "Pp3c1_39340V3.1" "Pp3c1_39350V3.1" "Pp3c1_39460V3.1" "Pp3c1_39470V3.1" "Pp3c1_39540V3.1"
[344] "Pp3c1_39550V3.1" "Pp3c1_39640V3.1" "Pp3c1_40240V3.1" "Pp3c1_40350V3.1" "Pp3c1_40490V3.1" "Pp3c1_40610V3.1" "Pp3c1_40630V3.1"
[351] "Pp3c1_40650V3.1" "Pp3c1_40790V3.1" "Pp3c1_40840V3.1" "Pp3c1_40870V3.1" "Pp3c1_41090V3.1" "Pp3c1_41250V3.1" "Pp3c1_41280V3.1"
[358] "Pp3c1_41520V3.1" "Pp3c1_41710V3.1" "Pp3c1_41830V3.1" "Pp3c1_41900V3.1" "Pp3c1_41910V3.1" "Pp3c1_42020V3.1" "Pp3c1_42450V3.1"
[365] "Pp3c1_42570V3.1" "Pp3c1_42710V3.1" "Pp3c1_42740V3.1" "Pp3c1_42870V3.1" "Pp3c2_200V3.1" "Pp3c2_530V3.1" "Pp3c2_550V3.1"
[372] "Pp3c2_570V3.1" "Pp3c2_780V3.1" "Pp3c2_930V3.1" "Pp3c2_1090V3.1" "Pp3c2_1120V3.1" "Pp3c2_1270V3.1" "Pp3c2_1280V3.1"
[379] "Pp3c2_1510V3.1" "Pp3c2_1520V3.1" "Pp3c2_1570V3.1" "Pp3c2_1870V3.1" "Pp3c2_1940V3.1" "Pp3c2_2070V3.1" "Pp3c2_2120V3.1"
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[911] "Pp3c3_26340V3.1" "Pp3c3_26370V3.1" "Pp3c3_26400V3.1" "Pp3c3_26420V3.1" "Pp3c3_26500V3.1" "Pp3c3_26520V3.1" "Pp3c3_26540V3.1"
[918] "Pp3c3_26770V3.1" "Pp3c3_26890V3.1" "Pp3c3_26910V3.1" "Pp3c3_26950V3.1" "Pp3c3_27000V3.1" "Pp3c3_27030V3.1" "Pp3c3_27280V3.1"
[925] "Pp3c3_27450V3.1" "Pp3c3_27480V3.1" "Pp3c3_27570V3.1" "Pp3c3_27750V3.1" "Pp3c3_27940V3.1" "Pp3c3_28000V3.1" "Pp3c3_28040V3.1"
[932] "Pp3c3_28050V3.1" "Pp3c3_28140V3.1" "Pp3c3_28180V3.1" "Pp3c3_28310V3.1" "Pp3c3_28590V3.1" "Pp3c3_28810V3.1" "Pp3c3_29480V3.1"
[939] "Pp3c3_29970V3.1" "Pp3c3_30120V3.1" "Pp3c3_30140V3.1" "Pp3c3_30150V3.1" "Pp3c3_30330V3.1" "Pp3c3_30340V3.1" "Pp3c3_30620V3.1"
[946] "Pp3c3_30710V3.1" "Pp3c3_30960V3.1" "Pp3c3_30990V3.1" "Pp3c3_31010V3.1" "Pp3c3_31110V3.1" "Pp3c3_31260V3.1" "Pp3c3_31460V3.1"
[953] "Pp3c3_31720V3.1" "Pp3c3_31840V3.1" "Pp3c3_31900V3.1" "Pp3c3_32100V3.1" "Pp3c3_32230V3.1" "Pp3c3_32300V3.1" "Pp3c3_32330V3.1"
[960] "Pp3c3_32390V3.1" "Pp3c3_32420V3.1" "Pp3c3_32490V3.1" "Pp3c3_32640V3.1" "Pp3c3_32670V3.1" "Pp3c3_32790V3.1" "Pp3c3_32860V3.1"
[967] "Pp3c3_33160V3.1" "Pp3c3_33210V3.1" "Pp3c3_33270V3.1" "Pp3c3_33330V3.1" "Pp3c3_33400V3.1" "Pp3c3_33440V3.1" "Pp3c3_33470V3.1"
[974] "Pp3c3_33940V3.1" "Pp3c3_34180V3.1" "Pp3c3_34260V3.1" "Pp3c3_34440V3.1" "Pp3c3_34460V3.1" "Pp3c3_34580V3.1" "Pp3c3_34790V3.1"
[981] "Pp3c3_35020V3.1" "Pp3c3_35080V3.1" "Pp3c3_35180V3.1" "Pp3c3_35290V3.1" "Pp3c3_35330V3.1" "Pp3c3_35390V3.1" "Pp3c3_35520V3.1"
[988] "Pp3c3_35620V3.1" "Pp3c3_35720V3.1" "Pp3c3_36210V3.1" "Pp3c3_36660V3.1" "Pp3c3_36760V3.1" "Pp3c3_37020V3.1" "Pp3c3_37200V3.1"
[995] "Pp3c3_37260V3.1" "Pp3c3_37390V3.1" "Pp3c3_37400V3.1" "Pp3c3_37490V3.1" "Pp3c3_37800V3.1" "Pp3c3_37820V3.1"
[ reached getOption("max.print") -- omitted 4429 entries ]