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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/NOISeq/spa_D vs. spa_L_5519_NOISeq_rpkm_prob.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/NOISeq/spa_D vs. spa_L_5975_NOISeqbio_tmm_prob_seed_12345.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/NOISeq/spa_D vs. spa_L_6749_NOISeqbio_rpkm_prob_seed_12345.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/edgeR/spa_D vs. spa_L_10894_edgeR_fdr.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/spa_D_vs._spa_L_intersection_four_methods_5162.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/spa_D_vs._spa_L_intersection_four_methods_5162.tsv.filter_-1_1.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/spa_D_vs._spa_L_intersection_three_methods_5429.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_D_spa_L/spa_D_vs._spa_L_intersection_three_methods_5429.tsv.filter_-1_1.tsv 0 → 100755
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runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_L_WT_D/DEGpipe_spa_L vs. WT_D.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_L" "SampleNames: WT_D"
[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_L" "spa_L.1" "spa_L.2" "WT_D" "WT_D.1" "WT_D.2"
spa_L spa_L.1 spa_L.2 WT_D WT_D.1 WT_D.2
Pp3c1_20V3.1 398 419 391 194 198 298
Pp3c1_40V3.1 114 101 142 439 523 588
Pp3c1_60V3.1 546 498 448 622 626 743
Pp3c1_70V3.1 407 449 484 459 526 643
Pp3c1_80V3.1 4 2 1 1 1 0
Pp3c1_100V3.1 760 603 872 576 539 761
[1] "Raw data row number: 31315"
[1] "Raw data column number: 6"
[1] "Filtered data row number: 19879"
[1] "Filtered data row number: 6"
[1] "edgeR is running with spa_L vs. WT_D"
[1] "DESeq2 is running with spa_L vs. WT_D"
[1] "NOISeq is running with spa_L vs. WT_D"
Filtering out low count features...
18995 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_L" "spa_L.1" "spa_L.2" "WT_D" "WT_D.1" "WT_D.2"
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-146.883 -37.668 -0.182 29.218 289.233
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 293.82 68.95 4.261 5.29e-05 ***
bx1 -227.44 97.52 -2.332 0.022075 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 1618.27 9335.43 0.173 0.862795
bx5 -302.80 400.82 -0.755 0.452094
bx6 -88.54 104.13 -0.850 0.397575
bx7 225.23 79.09 2.848 0.005532 **
bx8 322.01 79.94 4.028 0.000123 ***
bx9 542.45 100.48 5.399 6.12e-07 ***
bx10 21.96 292.63 0.075 0.940348
bx11 -1010.72 1584.54 -0.638 0.525297
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 68.95 on 84 degrees of freedom
Multiple R-squared: 0.806, Adjusted R-squared: 0.7852
F-statistic: 38.78 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
-138.48 -36.37 0.00 26.32 279.90
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 298.94 65.63 4.555 1.76e-05 ***
bx1 -231.62 92.81 -2.496 0.014530 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 1720.73 8884.89 0.194 0.846902
bx5 -314.42 381.48 -0.824 0.412150
bx6 -100.74 99.11 -1.017 0.312307
bx7 207.50 75.27 2.757 0.007160 **
bx8 284.53 76.08 3.740 0.000335 ***
bx9 481.35 95.63 5.033 2.71e-06 ***
bx10 54.42 278.51 0.195 0.845564
bx11 -1017.84 1508.07 -0.675 0.501574
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 65.63 on 84 degrees of freedom
Multiple R-squared: 0.7974, Adjusted R-squared: 0.7757
F-statistic: 36.73 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
-131.249 -28.914 -1.558 25.808 236.880
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 272.19 58.37 4.663 1.16e-05 ***
bx1 -197.11 82.54 -2.388 0.019186 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 217.50 7902.04 0.028 0.978106
bx5 -218.10 339.28 -0.643 0.522081
bx6 -95.79 88.14 -1.087 0.280254
bx7 211.19 66.94 3.155 0.002230 **
bx8 264.48 67.66 3.909 0.000187 ***
bx9 442.45 85.05 5.202 1.37e-06 ***
bx10 33.54 247.70 0.135 0.892600
bx11 -1394.21 1341.25 -1.039 0.301561
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 58.37 on 84 degrees of freedom
Multiple R-squared: 0.8032, Adjusted R-squared: 0.7821
F-statistic: 38.1 on 9 and 84 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-94.984 -20.117 -0.092 21.225 121.336
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 246.18 36.87 6.677 2.48e-09 ***
bx1 -160.90 52.14 -3.086 0.002750 **
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 967.99 4991.77 0.194 0.846709
bx5 -245.75 214.32 -1.147 0.254783
bx6 -63.25 55.68 -1.136 0.259221
bx7 133.04 42.29 3.146 0.002291 **
bx8 160.36 42.74 3.752 0.000322 ***
bx9 63.21 53.73 1.177 0.242713
bx10 61.85 156.47 0.395 0.693659
bx11 -742.24 847.27 -0.876 0.383509
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 36.87 on 84 degrees of freedom
Multiple R-squared: 0.7506, Adjusted R-squared: 0.7239
F-statistic: 28.09 on 9 and 84 DF, p-value: < 2.2e-16
[1] "WT_D.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-104.083 -20.930 0.272 23.826 128.712
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 270.77 39.85 6.794 1.47e-09 ***
bx1 -175.80 56.36 -3.119 0.002486 **
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 780.53 5395.74 0.145 0.885328
bx5 -256.77 231.67 -1.108 0.270869
bx6 -62.26 60.19 -1.034 0.303907
bx7 146.09 45.71 3.196 0.001965 **
bx8 173.96 46.20 3.765 0.000308 ***
bx9 62.63 58.08 1.078 0.283951
bx10 76.97 169.14 0.455 0.650247
bx11 -845.65 915.84 -0.923 0.358465
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 39.85 on 84 degrees of freedom
Multiple R-squared: 0.7466, Adjusted R-squared: 0.7195
F-statistic: 27.5 on 9 and 84 DF, p-value: < 2.2e-16
[1] "WT_D.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-123.55 -26.80 0.00 24.19 150.81
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 277.57 47.11 5.892 7.67e-08 ***
bx1 -173.85 66.62 -2.609 0.010737 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 1228.27 6378.09 0.193 0.847755
bx5 -280.28 273.85 -1.023 0.309017
bx6 -24.43 71.14 -0.343 0.732212
bx7 219.03 54.03 4.054 0.000112 ***
bx8 264.06 54.61 4.835 5.95e-06 ***
bx9 126.89 68.65 1.848 0.068069 .
bx10 74.71 199.93 0.374 0.709567
bx11 -847.02 1082.58 -0.782 0.436173
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 47.11 on 84 degrees of freedom
Multiple R-squared: 0.7687, Adjusted R-squared: 0.7439
F-statistic: 31.01 on 9 and 84 DF, p-value: < 2.2e-16
[1] "GC content bias detection is to be computed for:"
[1] "spa_L" "WT_D"
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-12.5936 -3.1690 -0.0172 2.4190 24.0502
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 26.014 5.789 4.493 2.22e-05 ***
bx1 -19.613 8.187 -2.396 0.018818 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 101.543 783.788 0.130 0.897229
bx5 -24.897 33.652 -0.740 0.461459
bx6 -8.553 8.743 -0.978 0.330721
bx7 19.315 6.640 2.909 0.004641 **
bx8 26.146 6.711 3.896 0.000196 ***
bx9 43.852 8.436 5.198 1.39e-06 ***
bx10 4.631 24.569 0.188 0.850963
bx11 -111.596 133.036 -0.839 0.403937
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 5.789 on 84 degrees of freedom
Multiple R-squared: 0.802, Adjusted R-squared: 0.7808
F-statistic: 37.81 on 9 and 84 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-11.599 -2.595 0.000 2.476 14.432
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 28.788 4.447 6.474 6.10e-09 ***
bx1 -18.547 6.289 -2.949 0.004128 **
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 106.436 602.062 0.177 0.860102
bx5 -28.331 25.850 -1.096 0.276221
bx6 -5.675 6.716 -0.845 0.400513
bx7 17.673 5.101 3.465 0.000838 ***
bx8 21.236 5.155 4.119 8.86e-05 ***
bx9 8.832 6.480 1.363 0.176560
bx10 7.705 18.872 0.408 0.684120
bx11 -88.250 102.190 -0.864 0.390276
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.447 on 84 degrees of freedom
Multiple R-squared: 0.756, Adjusted R-squared: 0.7299
F-statistic: 28.92 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
-12.5936 -3.1690 -0.0172 2.4190 24.0502
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 26.014 5.789 4.493 2.22e-05 ***
bx1 -19.613 8.187 -2.396 0.018818 *
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 101.543 783.788 0.130 0.897229
bx5 -24.897 33.652 -0.740 0.461459
bx6 -8.553 8.743 -0.978 0.330721
bx7 19.315 6.640 2.909 0.004641 **
bx8 26.146 6.711 3.896 0.000196 ***
bx9 43.852 8.436 5.198 1.39e-06 ***
bx10 4.631 24.569 0.188 0.850963
bx11 -111.596 133.036 -0.839 0.403937
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 5.789 on 84 degrees of freedom
Multiple R-squared: 0.802, Adjusted R-squared: 0.7808
F-statistic: 37.81 on 9 and 84 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-11.599 -2.595 0.000 2.476 14.432
Coefficients: (3 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 28.788 4.447 6.474 6.10e-09 ***
bx1 -18.547 6.289 -2.949 0.004128 **
bx2 NA NA NA NA
bx3 NA NA NA NA
bx4 106.436 602.062 0.177 0.860102
bx5 -28.331 25.850 -1.096 0.276221
bx6 -5.675 6.716 -0.845 0.400513
bx7 17.673 5.101 3.465 0.000838 ***
bx8 21.236 5.155 4.119 8.86e-05 ***
bx9 8.832 6.480 1.363 0.176560
bx10 7.705 18.872 0.408 0.684120
bx11 -88.250 102.190 -0.864 0.390276
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.447 on 84 degrees of freedom
Multiple R-squared: 0.756, Adjusted R-squared: 0.7299
F-statistic: 28.92 on 9 and 84 DF, p-value: < 2.2e-16
[1] "Length bias detection information is to be computed for:"
[1] "spa_L" "spa_L.1" "spa_L.2" "WT_D" "WT_D.1" "WT_D.2"
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-106.727 -40.129 -1.588 31.615 207.207
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 865.59 59.27 14.604 < 2e-16 ***
bx1 -835.61 82.66 -10.108 4.56e-16 ***
bx2 -712.12 85.97 -8.284 1.91e-12 ***
bx3 -249.14 74.34 -3.352 0.001217 **
bx4 -410.49 67.15 -6.113 3.16e-08 ***
bx5 -309.95 67.22 -4.611 1.46e-05 ***
bx6 -417.08 71.08 -5.867 9.02e-08 ***
bx7 -254.73 80.99 -3.145 0.002313 **
bx8 -388.56 109.61 -3.545 0.000652 ***
bx9 -58.51 228.57 -0.256 0.798616
bx10 -2057.83 2960.13 -0.695 0.488908
bx11 32016.86 48233.47 0.664 0.508687
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 59.27 on 82 degrees of freedom
Multiple R-squared: 0.7105, Adjusted R-squared: 0.6717
F-statistic: 18.3 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
-108.31 -34.11 -2.46 28.46 204.51
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 962.93 57.29 16.807 < 2e-16 ***
bx1 -934.89 79.91 -11.699 < 2e-16 ***
bx2 -801.87 83.10 -9.649 3.69e-15 ***
bx3 -368.13 71.86 -5.123 1.96e-06 ***
bx4 -542.88 64.91 -8.363 1.33e-12 ***
bx5 -433.56 64.98 -6.672 2.75e-09 ***
bx6 -535.77 68.72 -7.797 1.76e-11 ***
bx7 -366.20 78.29 -4.677 1.13e-05 ***
bx8 -472.64 105.96 -4.461 2.58e-05 ***
bx9 -142.10 220.95 -0.643 0.522
bx10 -2111.06 2861.46 -0.738 0.463
bx11 32559.14 46625.61 0.698 0.487
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 57.29 on 82 degrees of freedom
Multiple R-squared: 0.7511, Adjusted R-squared: 0.7177
F-statistic: 22.49 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
-81.923 -31.157 -0.127 25.862 155.995
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 929.20 47.32 19.635 < 2e-16 ***
bx1 -893.27 66.00 -13.534 < 2e-16 ***
bx2 -805.88 68.64 -11.741 < 2e-16 ***
bx3 -428.03 59.35 -7.212 2.49e-10 ***
bx4 -527.71 53.62 -9.842 1.53e-15 ***
bx5 -428.31 53.67 -7.980 7.64e-12 ***
bx6 -522.89 56.76 -9.213 2.71e-14 ***
bx7 -330.80 64.67 -5.116 2.02e-06 ***
bx8 -492.99 87.52 -5.633 2.42e-07 ***
bx9 -44.37 182.49 -0.243 0.809
bx10 -2868.04 2363.46 -1.213 0.228
bx11 43858.06 38511.07 1.139 0.258
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 47.32 on 82 degrees of freedom
Multiple R-squared: 0.8258, Adjusted R-squared: 0.8024
F-statistic: 35.33 on 11 and 82 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-69.723 -22.441 -1.883 19.394 101.926
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 1100.56 33.61 32.746 < 2e-16 ***
bx1 -1061.33 46.88 -22.641 < 2e-16 ***
bx2 -981.77 48.75 -20.140 < 2e-16 ***
bx3 -802.46 42.15 -19.037 < 2e-16 ***
bx4 -869.07 38.08 -22.823 < 2e-16 ***
bx5 -728.65 38.12 -19.116 < 2e-16 ***
bx6 -727.83 40.31 -18.056 < 2e-16 ***
bx7 -581.06 45.93 -12.652 < 2e-16 ***
bx8 -599.10 62.16 -9.639 3.88e-15 ***
bx9 -344.17 129.61 -2.655 0.00952 **
bx10 -904.37 1678.56 -0.539 0.59150
bx11 13933.20 27351.03 0.509 0.61183
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 33.61 on 82 degrees of freedom
Multiple R-squared: 0.95, Adjusted R-squared: 0.9433
F-statistic: 141.8 on 11 and 82 DF, p-value: < 2.2e-16
[1] "WT_D.1"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-77.547 -25.531 -1.902 23.801 112.460
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 1163.70 37.34 31.163 < 2e-16 ***
bx1 -1118.82 52.08 -21.482 < 2e-16 ***
bx2 -1029.14 54.16 -19.001 < 2e-16 ***
bx3 -822.85 46.83 -17.570 < 2e-16 ***
bx4 -907.71 42.31 -21.455 < 2e-16 ***
bx5 -756.91 42.35 -17.873 < 2e-16 ***
bx6 -755.56 44.79 -16.871 < 2e-16 ***
bx7 -603.54 51.03 -11.828 < 2e-16 ***
bx8 -619.42 69.06 -8.969 8.28e-14 ***
bx9 -360.80 144.00 -2.506 0.0142 *
bx10 -733.34 1864.97 -0.393 0.6952
bx11 11247.14 30388.53 0.370 0.7123
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 37.34 on 82 degrees of freedom
Multiple R-squared: 0.9442, Adjusted R-squared: 0.9367
F-statistic: 126.2 on 11 and 82 DF, p-value: < 2.2e-16
[1] "WT_D.2"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-92.22 -32.33 -2.71 27.21 141.94
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 1340.09 44.83 29.895 < 2e-16 ***
bx1 -1290.86 62.52 -20.647 < 2e-16 ***
bx2 -1189.64 65.02 -18.297 < 2e-16 ***
bx3 -924.58 56.22 -16.446 < 2e-16 ***
bx4 -1031.12 50.79 -20.303 < 2e-16 ***
bx5 -845.98 50.84 -16.641 < 2e-16 ***
bx6 -851.21 53.76 -15.833 < 2e-16 ***
bx7 -674.90 61.25 -11.018 < 2e-16 ***
bx8 -690.24 82.90 -8.326 1.58e-12 ***
bx9 -409.86 172.87 -2.371 0.0201 *
bx10 -697.10 2238.76 -0.311 0.7563
bx11 10411.16 36479.21 0.285 0.7761
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 44.83 on 82 degrees of freedom
Multiple R-squared: 0.9401, Adjusted R-squared: 0.932
F-statistic: 117 on 11 and 82 DF, p-value: < 2.2e-16
[1] "Length bias detection information is to be computed for:"
[1] "spa_L" "WT_D"
[1] "spa_L"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-8.8208 -3.0227 -0.0116 2.6153 16.8967
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 83.213 4.877 17.062 < 2e-16 ***
bx1 -80.382 6.802 -11.817 < 2e-16 ***
bx2 -70.128 7.074 -9.914 1.11e-15 ***
bx3 -31.811 6.117 -5.201 1.43e-06 ***
bx4 -44.917 5.526 -8.129 3.88e-12 ***
bx5 -35.495 5.531 -6.417 8.43e-09 ***
bx6 -44.752 5.849 -7.651 3.42e-11 ***
bx7 -28.848 6.664 -4.329 4.21e-05 ***
bx8 -41.023 9.020 -4.548 1.85e-05 ***
bx9 -7.611 18.808 -0.405 0.687
bx10 -212.974 243.576 -0.874 0.384
bx11 3292.882 3968.905 0.830 0.409
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.877 on 82 degrees of freedom
Multiple R-squared: 0.7672, Adjusted R-squared: 0.736
F-statistic: 24.57 on 11 and 82 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-8.6100 -2.9349 -0.2367 2.5583 12.7535
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 129.962 4.152 31.300 < 2e-16 ***
bx1 -125.157 5.791 -21.612 < 2e-16 ***
bx2 -115.418 6.022 -19.165 < 2e-16 ***
bx3 -92.163 5.207 -17.698 < 2e-16 ***
bx4 -101.366 4.704 -21.548 < 2e-16 ***
bx5 -84.242 4.709 -17.890 < 2e-16 ***
bx6 -84.341 4.980 -16.937 < 2e-16 ***
bx7 -67.197 5.674 -11.844 < 2e-16 ***
bx8 -69.014 7.679 -8.988 7.62e-14 ***
bx9 -40.069 16.012 -2.502 0.0143 *
bx10 -86.483 207.369 -0.417 0.6777
bx11 1314.108 3378.937 0.389 0.6983
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.152 on 82 degrees of freedom
Multiple R-squared: 0.9451, Adjusted R-squared: 0.9378
F-statistic: 128.4 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
-8.8208 -3.0227 -0.0116 2.6153 16.8967
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 83.213 4.877 17.062 < 2e-16 ***
bx1 -80.382 6.802 -11.817 < 2e-16 ***
bx2 -70.128 7.074 -9.914 1.11e-15 ***
bx3 -31.811 6.117 -5.201 1.43e-06 ***
bx4 -44.917 5.526 -8.129 3.88e-12 ***
bx5 -35.495 5.531 -6.417 8.43e-09 ***
bx6 -44.752 5.849 -7.651 3.42e-11 ***
bx7 -28.848 6.664 -4.329 4.21e-05 ***
bx8 -41.023 9.020 -4.548 1.85e-05 ***
bx9 -7.611 18.808 -0.405 0.687
bx10 -212.974 243.576 -0.874 0.384
bx11 3292.882 3968.905 0.830 0.409
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.877 on 82 degrees of freedom
Multiple R-squared: 0.7672, Adjusted R-squared: 0.736
F-statistic: 24.57 on 11 and 82 DF, p-value: < 2.2e-16
[1] "WT_D"
Call:
lm(formula = datos[, i] ~ bx)
Residuals:
Min 1Q Median 3Q Max
-8.6100 -2.9349 -0.2367 2.5583 12.7535
Coefficients: (1 not defined because of singularities)
Estimate Std. Error t value Pr(>|t|)
(Intercept) 129.962 4.152 31.300 < 2e-16 ***
bx1 -125.157 5.791 -21.612 < 2e-16 ***
bx2 -115.418 6.022 -19.165 < 2e-16 ***
bx3 -92.163 5.207 -17.698 < 2e-16 ***
bx4 -101.366 4.704 -21.548 < 2e-16 ***
bx5 -84.242 4.709 -17.890 < 2e-16 ***
bx6 -84.341 4.980 -16.937 < 2e-16 ***
bx7 -67.197 5.674 -11.844 < 2e-16 ***
bx8 -69.014 7.679 -8.988 7.62e-14 ***
bx9 -40.069 16.012 -2.502 0.0143 *
bx10 -86.483 207.369 -0.417 0.6777
bx11 1314.108 3378.937 0.389 0.6983
bx12 NA NA NA NA
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
Residual standard error: 4.152 on 82 degrees of freedom
Multiple R-squared: 0.9451, Adjusted R-squared: 0.9378
F-statistic: 128.4 on 11 and 82 DF, p-value: < 2.2e-16
[1] "Reference sample is: spa_L"
[1] "Confidence intervals for median of M:"
0.5% 99.5% Diagnostic Test
spa_L.1 "0.000810551993255638" "0.0100642453707101" "FAILED"
spa_L.2 "0.0105807819266819" "0.0259853930351914" "FAILED"
WT_D "0.0709504471197357" "0.127766821986392" "FAILED"
WT_D.1 "0.0665670646587269" "0.126276764077996" "FAILED"
WT_D.2 "0.0993139318175518" "0.160517137583423" "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...
18363 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 30 389 9 119 45 9320 19 1238 5064 89 35 473 4 1323 206
Resampling cluster...[1] 1
[1] 2
[1] 3
[1] 4
[1] 5
[1] 6
Size of 15 subclusters of cluster: 6
[1] 999 567 610 712 253 480 729 1579 546 612 352 363 258 395 865
[1] 7
[1] 8
Size of 15 subclusters of cluster: 8
[1] 34 64 57 119 139 62 90 137 6 55 76 56 115 106 122
[1] 9
Size of 15 subclusters of cluster: 9
[1] 510 595 355 210 525 303 484 216 396 208 304 173 227 314 244
[1] 10
[1] 11
[1] 12
[1] 13
[1] 14
Size of 15 subclusters of cluster: 14
[1] 1 99 59 57 72 91 56 45 147 131 137 104 152 95 77
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.11406370658444
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
0.0000 0.8956 0.9884 0.8832 0.9994 1.0000 632
Computing Z values...
Filtering out low count features...
18995 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 85 79 4 12 79 253 274 10060 1542 984 28 36 18 5162 379
Resampling cluster...[1] 1
[1] 2
[1] 3
[1] 4
[1] 5
[1] 6
[1] 7
[1] 8
Size of 15 subclusters of cluster: 8
[1] 321 576 983 191 350 2067 1045 636 761 553 822 245 400 495 615
[1] 9
Size of 15 subclusters of cluster: 9
[1] 134 75 100 107 124 54 143 106 114 80 79 145 65 174 42
[1] 10
[1] 11
[1] 12
[1] 13
[1] 14
Size of 15 subclusters of cluster: 14
[1] 227 224 517 660 338 565 198 296 245 310 509 181 322 349 221
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.114875863659968
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.0000 0.8980 0.9888 0.8817 0.9990 1.0000
Computing Z values...
Filtering out low count features...
18995 features are to be kept for differential expression analysis with filtering method 1
...k-means clustering done
Size of 15 clusters:
[1] 432 8791 17 4 1722 288 142 496 9 44 56 5202 68 1604 120
Resampling cluster...[1] 1
[1] 2
Size of 15 subclusters of cluster: 2
[1] 502 326 133 805 547 492 535 452 868 210 199 2191 698 421 412
[1] 3
[1] 4
[1] 5
Size of 15 subclusters of cluster: 5
[1] 108 87 141 108 59 172 110 125 95 168 195 155 98 53 48
[1] 6
[1] 7
[1] 8
[1] 9
[1] 10
[1] 11
[1] 12
Size of 15 subclusters of cluster: 12
[1] 393 368 303 555 345 273 382 424 296 268 154 457 221 512 251
[1] 13
[1] 14
Size of 15 subclusters of cluster: 14
[1] 27 98 112 64 79 75 121 118 100 165 223 24 127 156 115
[1] 15
Computing Z for noise...
Computing probability of differential expression...
p0 = 0.138135208878582
Probability
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.0000 0.8453 0.9776 0.8559 0.9990 1.0000
[1] "7564 differentially expressed features"
[1] "4167 differentially expressed features (up in first condition)"
[1] "3397 differentially expressed features (down in first condition)"
[1] "7081 differentially expressed features"
[1] "4633 differentially expressed features (up in first condition)"
[1] "2448 differentially expressed features (down in first condition)"
[1] "6445 differentially expressed features"
[1] "9845 differentially expressed features"
[1] "5146 differentially expressed features"
[1] "7715 differentially expressed features"
[1] "6403 differentially expressed features"
[1] "9757 differentially expressed features"
[1] "13646 differentially expressed features"
[1] "7564 differentially expressed features"
[1] "12996 differentially expressed features"
[1] "7081 differentially expressed features"
[1] "6445 differentially expressed features"
[1] "5146 differentially expressed features"
[1] "DEGs edgeR"
[1] 12077
[1] "DEGs deseq2"
[1] 11520
[1] "DEGs noiseq"
[1] 6445
[1] "DEGs noiseqbio"
[1] 7564
[1] "DEGs intersection without direction check (four methods)"
[1] 5944
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_430V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1"
[8] "Pp3c1_890V3.1" "Pp3c1_900V3.1" "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1570V3.1"
[15] "Pp3c1_1790V3.1" "Pp3c1_1800V3.1" "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1"
[22] "Pp3c1_2210V3.1" "Pp3c1_2220V3.1" "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1"
[29] "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1" "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1"
[36] "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1"
[43] "Pp3c1_4350V3.1" "Pp3c1_4470V3.1" "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1"
[50] "Pp3c1_5460V3.1" "Pp3c1_5570V3.1" "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5850V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1"
[57] "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6470V3.1" "Pp3c1_6640V3.1" "Pp3c1_6930V3.1"
[64] "Pp3c1_7030V3.1" "Pp3c1_7160V3.1" "Pp3c1_7170V3.1" "Pp3c1_7300V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[71] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7590V3.1" "Pp3c1_7710V3.1" "Pp3c1_7720V3.1"
[78] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7880V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1"
[85] "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8280V3.1" "Pp3c1_8530V3.1" "Pp3c1_8550V3.1" "Pp3c1_8870V3.1"
[92] "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1"
[99] "Pp3c1_9630V3.1" "Pp3c1_9790V3.1" "Pp3c1_9860V3.1" "Pp3c1_9970V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1"
[106] "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10620V3.1"
[113] "Pp3c1_10810V3.1" "Pp3c1_10880V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1"
[120] "Pp3c1_11980V3.1" "Pp3c1_12020V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1"
[127] "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_12940V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1"
[134] "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13910V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14740V3.1"
[141] "Pp3c1_14760V3.1" "Pp3c1_14770V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15150V3.1"
[148] "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1" "Pp3c1_15750V3.1"
[155] "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1" "Pp3c1_16900V3.1"
[162] "Pp3c1_16980V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_17870V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18260V3.1"
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[694] "Pp3c2_30030V3.1" "Pp3c2_30250V3.1" "Pp3c2_30340V3.1" "Pp3c2_30510V3.1" "Pp3c2_30530V3.1" "Pp3c2_30580V3.1" "Pp3c2_30600V3.1"
[701] "Pp3c2_30610V3.1" "Pp3c2_30620V3.1" "Pp3c2_30630V3.1" "Pp3c2_30720V3.1" "Pp3c2_30860V3.1" "Pp3c2_30940V3.1" "Pp3c2_30970V3.1"
[708] "Pp3c2_30980V3.1" "Pp3c2_31270V3.1" "Pp3c2_31280V3.1" "Pp3c2_31330V3.1" "Pp3c2_31470V3.1" "Pp3c2_31540V3.1" "Pp3c2_31580V3.1"
[715] "Pp3c2_31590V3.1" "Pp3c2_31610V3.1" "Pp3c2_31930V3.1" "Pp3c2_32270V3.1" "Pp3c2_32320V3.1" "Pp3c2_32540V3.1" "Pp3c2_32600V3.1"
[722] "Pp3c2_32610V3.1" "Pp3c2_32690V3.1" "Pp3c2_32740V3.1" "Pp3c2_32770V3.1" "Pp3c2_32860V3.1" "Pp3c2_32990V3.1" "Pp3c2_33330V3.1"
[729] "Pp3c2_33430V3.1" "Pp3c2_33890V3.1" "Pp3c2_34110V3.1" "Pp3c2_34120V3.1" "Pp3c2_34130V3.1" "Pp3c2_34270V3.1" "Pp3c2_34540V3.1"
[736] "Pp3c2_34550V3.1" "Pp3c2_34630V3.1" "Pp3c2_34670V3.1" "Pp3c2_34780V3.1" "Pp3c2_34820V3.1" "Pp3c2_34830V3.1" "Pp3c2_34930V3.1"
[743] "Pp3c2_35010V3.1" "Pp3c2_35170V3.1" "Pp3c2_35200V3.1" "Pp3c2_35250V3.1" "Pp3c2_35530V3.1" "Pp3c2_35740V3.1" "Pp3c2_35800V3.1"
[750] "Pp3c2_35870V3.1" "Pp3c2_35910V3.1" "Pp3c2_35930V3.1" "Pp3c2_35940V3.1" "Pp3c2_35950V3.1" "Pp3c2_36100V3.1" "Pp3c2_36220V3.1"
[757] "Pp3c2_36570V3.1" "Pp3c2_36790V3.1" "Pp3c2_36860V3.1" "Pp3c2_36990V3.1" "Pp3c2_37190V3.1" "Pp3c2_37210V3.1" "Pp3c2_37290V3.1"
[764] "Pp3c2_37670V3.1" "Pp3c2_37790V3.1" "Pp3c2_37900V3.1" "Pp3c2_37920V3.1" "Pp3c2_37990V3.1" "Pp3c2_38120V3.1" "Pp3c2_38160V3.1"
[771] "Pp3c2_38210V3.1" "Pp3c3_240V3.1" "Pp3c3_330V3.1" "Pp3c3_340V3.1" "Pp3c3_430V3.1" "Pp3c3_490V3.1" "Pp3c3_690V3.1"
[778] "Pp3c3_810V3.1" "Pp3c3_884V3.1" "Pp3c3_950V3.1" "Pp3c3_1020V3.1" "Pp3c3_1090V3.1" "Pp3c3_1160V3.1" "Pp3c3_1164V3.1"
[785] "Pp3c3_1500V3.1" "Pp3c3_1630V3.1" "Pp3c3_1650V3.1" "Pp3c3_1700V3.1" "Pp3c3_1740V3.1" "Pp3c3_1750V3.1" "Pp3c3_1910V3.1"
[792] "Pp3c3_2240V3.1" "Pp3c3_2380V3.1" "Pp3c3_2450V3.1" "Pp3c3_2620V3.1" "Pp3c3_2690V3.1" "Pp3c3_2730V3.1" "Pp3c3_2740V3.1"
[799] "Pp3c3_2820V3.1" "Pp3c3_2980V3.1" "Pp3c3_3070V3.1" "Pp3c3_3140V3.1" "Pp3c3_3200V3.1" "Pp3c3_3290V3.1" "Pp3c3_3490V3.1"
[806] "Pp3c3_3510V3.1" "Pp3c3_4090V3.1" "Pp3c3_4100V3.1" "Pp3c3_4140V3.1" "Pp3c3_4160V3.1" "Pp3c3_4440V3.1" "Pp3c3_4850V3.1"
[813] "Pp3c3_4970V3.1" "Pp3c3_5410V3.1" "Pp3c3_5420V3.1" "Pp3c3_5480V3.1" "Pp3c3_5540V3.1" "Pp3c3_5600V3.1" "Pp3c3_5620V3.1"
[820] "Pp3c3_5650V3.1" "Pp3c3_5930V3.1" "Pp3c3_6250V3.1" "Pp3c3_6370V3.1" "Pp3c3_6480V3.1" "Pp3c3_7020V3.1" "Pp3c3_7040V3.1"
[827] "Pp3c3_7160V3.1" "Pp3c3_7180V3.1" "Pp3c3_7370V3.1" "Pp3c3_7440V3.1" "Pp3c3_7450V3.1" "Pp3c3_7460V3.1" "Pp3c3_7930V3.1"
[834] "Pp3c3_8190V3.1" "Pp3c3_8340V3.1" "Pp3c3_8370V3.1" "Pp3c3_8490V3.1" "Pp3c3_8540V3.1" "Pp3c3_8580V3.1" "Pp3c3_8860V3.1"
[841] "Pp3c3_8880V3.1" "Pp3c3_9110V3.1" "Pp3c3_9200V3.1" "Pp3c3_9350V3.1" "Pp3c3_9470V3.1" "Pp3c3_9640V3.1" "Pp3c3_9650V3.1"
[848] "Pp3c3_9850V3.1" "Pp3c3_9940V3.1" "Pp3c3_9950V3.1" "Pp3c3_9970V3.1" "Pp3c3_9990V3.1" "Pp3c3_10220V3.1" "Pp3c3_10340V3.1"
[855] "Pp3c3_10539V3.1" "Pp3c3_10560V3.1" "Pp3c3_10700V3.1" "Pp3c3_10730V3.1" "Pp3c3_10800V3.1" "Pp3c3_10840V3.1" "Pp3c3_10900V3.1"
[862] "Pp3c3_10940V3.1" "Pp3c3_11090V3.1" "Pp3c3_11140V3.1" "Pp3c3_11210V3.1" "Pp3c3_11230V3.1" "Pp3c3_11640V3.1" "Pp3c3_11650V3.1"
[869] "Pp3c3_11690V3.1" "Pp3c3_11830V3.1" "Pp3c3_11840V3.1" "Pp3c3_11932V3.1" "Pp3c3_12000V3.1" "Pp3c3_12020V3.1" "Pp3c3_12090V3.1"
[876] "Pp3c3_12310V3.1" "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12560V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_12890V3.1"
[883] "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1" "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1"
[890] "Pp3c3_14130V3.1" "Pp3c3_14260V3.1" "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14670V3.1" "Pp3c3_14890V3.1"
[897] "Pp3c3_14920V3.1" "Pp3c3_14940V3.1" "Pp3c3_15010V3.1" "Pp3c3_15040V3.1" "Pp3c3_15300V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1"
[904] "Pp3c3_15470V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1" "Pp3c3_15820V3.1" "Pp3c3_16280V3.1" "Pp3c3_16290V3.1"
[911] "Pp3c3_16780V3.1" "Pp3c3_16880V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17080V3.1" "Pp3c3_17110V3.1" "Pp3c3_17120V3.1"
[918] "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17340V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1" "Pp3c3_17920V3.1" "Pp3c3_17950V3.1"
[925] "Pp3c3_18090V3.1" "Pp3c3_18310V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1" "Pp3c3_18900V3.1" "Pp3c3_18960V3.1"
[932] "Pp3c3_19080V3.1" "Pp3c3_19130V3.1" "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1" "Pp3c3_19580V3.1" "Pp3c3_19590V3.1"
[939] "Pp3c3_19710V3.1" "Pp3c3_19750V3.1" "Pp3c3_19970V3.1" "Pp3c3_20110V3.1" "Pp3c3_20130V3.1" "Pp3c3_20140V3.1" "Pp3c3_20220V3.1"
[946] "Pp3c3_20370V3.1" "Pp3c3_20390V3.1" "Pp3c3_20400V3.1" "Pp3c3_20410V3.1" "Pp3c3_20660V3.1" "Pp3c3_20980V3.1" "Pp3c3_21020V3.1"
[953] "Pp3c3_21060V3.1" "Pp3c3_21640V3.1" "Pp3c3_21670V3.1" "Pp3c3_21710V3.1" "Pp3c3_21750V3.1" "Pp3c3_21790V3.1" "Pp3c3_22050V3.1"
[960] "Pp3c3_22090V3.1" "Pp3c3_22160V3.1" "Pp3c3_22170V3.1" "Pp3c3_22320V3.1" "Pp3c3_22420V3.1" "Pp3c3_22480V3.1" "Pp3c3_22750V3.1"
[967] "Pp3c3_22990V3.1" "Pp3c3_23220V3.1" "Pp3c3_23240V3.1" "Pp3c3_23250V3.1" "Pp3c3_23290V3.1" "Pp3c3_23320V3.1" "Pp3c3_23340V3.1"
[974] "Pp3c3_23360V3.1" "Pp3c3_23410V3.1" "Pp3c3_23430V3.1" "Pp3c3_23680V3.1" "Pp3c3_23880V3.1" "Pp3c3_23910V3.1" "Pp3c3_23940V3.1"
[981] "Pp3c3_24030V3.1" "Pp3c3_24130V3.1" "Pp3c3_24520V3.1" "Pp3c3_24530V3.1" "Pp3c3_24664V3.1" "Pp3c3_24970V3.1" "Pp3c3_25080V3.1"
[988] "Pp3c3_25260V3.1" "Pp3c3_25360V3.1" "Pp3c3_25400V3.1" "Pp3c3_25610V3.1" "Pp3c3_25940V3.1" "Pp3c3_26340V3.1" "Pp3c3_26400V3.1"
[995] "Pp3c3_26420V3.1" "Pp3c3_26500V3.1" "Pp3c3_26520V3.1" "Pp3c3_26530V3.1" "Pp3c3_26540V3.1" "Pp3c3_26770V3.1"
[ reached getOption("max.print") -- omitted 4944 entries ]
[1] "DEGs intersection with direction check"
[1] 5944
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_430V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_690V3.1"
[8] "Pp3c1_890V3.1" "Pp3c1_900V3.1" "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1330V3.1" "Pp3c1_1570V3.1"
[15] "Pp3c1_1790V3.1" "Pp3c1_1800V3.1" "Pp3c1_1810V3.1" "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1"
[22] "Pp3c1_2210V3.1" "Pp3c1_2220V3.1" "Pp3c1_2420V3.1" "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1"
[29] "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1" "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1"
[36] "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1"
[43] "Pp3c1_4350V3.1" "Pp3c1_4470V3.1" "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1"
[50] "Pp3c1_5460V3.1" "Pp3c1_5570V3.1" "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5850V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1"
[57] "Pp3c1_6050V3.1" "Pp3c1_6110V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6470V3.1" "Pp3c1_6640V3.1" "Pp3c1_6930V3.1"
[64] "Pp3c1_7030V3.1" "Pp3c1_7160V3.1" "Pp3c1_7170V3.1" "Pp3c1_7300V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[71] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7590V3.1" "Pp3c1_7710V3.1" "Pp3c1_7720V3.1"
[78] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7880V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1"
[85] "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8280V3.1" "Pp3c1_8530V3.1" "Pp3c1_8550V3.1" "Pp3c1_8870V3.1"
[92] "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1"
[99] "Pp3c1_9630V3.1" "Pp3c1_9790V3.1" "Pp3c1_9860V3.1" "Pp3c1_9970V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1"
[106] "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10620V3.1"
[113] "Pp3c1_10810V3.1" "Pp3c1_10880V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1"
[120] "Pp3c1_11980V3.1" "Pp3c1_12020V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1"
[127] "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_12940V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1"
[134] "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13910V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14740V3.1"
[141] "Pp3c1_14760V3.1" "Pp3c1_14770V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15150V3.1"
[148] "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1" "Pp3c1_15750V3.1"
[155] "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1" "Pp3c1_16900V3.1"
[162] "Pp3c1_16980V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_17870V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1" "Pp3c1_18260V3.1"
[169] "Pp3c1_18420V3.1" "Pp3c1_18440V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1" "Pp3c1_18830V3.1" "Pp3c1_18860V3.1" "Pp3c1_18910V3.1"
[176] "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1" "Pp3c1_19240V3.1" "Pp3c1_19370V3.1" "Pp3c1_19400V3.1"
[183] "Pp3c1_20280V3.1" "Pp3c1_20310V3.1" "Pp3c1_20690V3.1" "Pp3c1_20700V3.1" "Pp3c1_20960V3.1" "Pp3c1_21050V3.1" "Pp3c1_21160V3.1"
[190] "Pp3c1_21200V3.1" "Pp3c1_21230V3.1" "Pp3c1_21290V3.1" "Pp3c1_21360V3.1" "Pp3c1_21400V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1"
[197] "Pp3c1_21650V3.1" "Pp3c1_21730V3.1" "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_21920V3.1" "Pp3c1_22090V3.1"
[204] "Pp3c1_22120V3.1" "Pp3c1_22260V3.1" "Pp3c1_22360V3.1" "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22540V3.1"
[211] "Pp3c1_22560V3.1" "Pp3c1_22590V3.1" "Pp3c1_22710V3.1" "Pp3c1_22900V3.1" "Pp3c1_22950V3.1" "Pp3c1_23000V3.1" "Pp3c1_23010V3.1"
[218] "Pp3c1_23040V3.1" "Pp3c1_23190V3.1" "Pp3c1_23260V3.1" "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1" "Pp3c1_23520V3.1"
[225] "Pp3c1_23600V3.1" "Pp3c1_23670V3.1" "Pp3c1_23750V3.1" "Pp3c1_23850V3.1" "Pp3c1_23900V3.1" "Pp3c1_23930V3.1" "Pp3c1_23960V3.1"
[232] "Pp3c1_23970V3.1" "Pp3c1_24000V3.1" "Pp3c1_24120V3.1" "Pp3c1_24350V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1" "Pp3c1_24600V3.1"
[239] "Pp3c1_24790V3.1" "Pp3c1_24820V3.1" "Pp3c1_25000V3.1" "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1" "Pp3c1_25400V3.1"
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[771] "Pp3c2_38210V3.1" "Pp3c3_240V3.1" "Pp3c3_330V3.1" "Pp3c3_340V3.1" "Pp3c3_430V3.1" "Pp3c3_490V3.1" "Pp3c3_690V3.1"
[778] "Pp3c3_810V3.1" "Pp3c3_884V3.1" "Pp3c3_950V3.1" "Pp3c3_1020V3.1" "Pp3c3_1090V3.1" "Pp3c3_1160V3.1" "Pp3c3_1164V3.1"
[785] "Pp3c3_1500V3.1" "Pp3c3_1630V3.1" "Pp3c3_1650V3.1" "Pp3c3_1700V3.1" "Pp3c3_1740V3.1" "Pp3c3_1750V3.1" "Pp3c3_1910V3.1"
[792] "Pp3c3_2240V3.1" "Pp3c3_2380V3.1" "Pp3c3_2450V3.1" "Pp3c3_2620V3.1" "Pp3c3_2690V3.1" "Pp3c3_2730V3.1" "Pp3c3_2740V3.1"
[799] "Pp3c3_2820V3.1" "Pp3c3_2980V3.1" "Pp3c3_3070V3.1" "Pp3c3_3140V3.1" "Pp3c3_3200V3.1" "Pp3c3_3290V3.1" "Pp3c3_3490V3.1"
[806] "Pp3c3_3510V3.1" "Pp3c3_4090V3.1" "Pp3c3_4100V3.1" "Pp3c3_4140V3.1" "Pp3c3_4160V3.1" "Pp3c3_4440V3.1" "Pp3c3_4850V3.1"
[813] "Pp3c3_4970V3.1" "Pp3c3_5410V3.1" "Pp3c3_5420V3.1" "Pp3c3_5480V3.1" "Pp3c3_5540V3.1" "Pp3c3_5600V3.1" "Pp3c3_5620V3.1"
[820] "Pp3c3_5650V3.1" "Pp3c3_5930V3.1" "Pp3c3_6250V3.1" "Pp3c3_6370V3.1" "Pp3c3_6480V3.1" "Pp3c3_7020V3.1" "Pp3c3_7040V3.1"
[827] "Pp3c3_7160V3.1" "Pp3c3_7180V3.1" "Pp3c3_7370V3.1" "Pp3c3_7440V3.1" "Pp3c3_7450V3.1" "Pp3c3_7460V3.1" "Pp3c3_7930V3.1"
[834] "Pp3c3_8190V3.1" "Pp3c3_8340V3.1" "Pp3c3_8370V3.1" "Pp3c3_8490V3.1" "Pp3c3_8540V3.1" "Pp3c3_8580V3.1" "Pp3c3_8860V3.1"
[841] "Pp3c3_8880V3.1" "Pp3c3_9110V3.1" "Pp3c3_9200V3.1" "Pp3c3_9350V3.1" "Pp3c3_9470V3.1" "Pp3c3_9640V3.1" "Pp3c3_9650V3.1"
[848] "Pp3c3_9850V3.1" "Pp3c3_9940V3.1" "Pp3c3_9950V3.1" "Pp3c3_9970V3.1" "Pp3c3_9990V3.1" "Pp3c3_10220V3.1" "Pp3c3_10340V3.1"
[855] "Pp3c3_10539V3.1" "Pp3c3_10560V3.1" "Pp3c3_10700V3.1" "Pp3c3_10730V3.1" "Pp3c3_10800V3.1" "Pp3c3_10840V3.1" "Pp3c3_10900V3.1"
[862] "Pp3c3_10940V3.1" "Pp3c3_11090V3.1" "Pp3c3_11140V3.1" "Pp3c3_11210V3.1" "Pp3c3_11230V3.1" "Pp3c3_11640V3.1" "Pp3c3_11650V3.1"
[869] "Pp3c3_11690V3.1" "Pp3c3_11830V3.1" "Pp3c3_11840V3.1" "Pp3c3_11932V3.1" "Pp3c3_12000V3.1" "Pp3c3_12020V3.1" "Pp3c3_12090V3.1"
[876] "Pp3c3_12310V3.1" "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12560V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_12890V3.1"
[883] "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1" "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1"
[890] "Pp3c3_14130V3.1" "Pp3c3_14260V3.1" "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14670V3.1" "Pp3c3_14890V3.1"
[897] "Pp3c3_14920V3.1" "Pp3c3_14940V3.1" "Pp3c3_15010V3.1" "Pp3c3_15040V3.1" "Pp3c3_15300V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1"
[904] "Pp3c3_15470V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1" "Pp3c3_15820V3.1" "Pp3c3_16280V3.1" "Pp3c3_16290V3.1"
[911] "Pp3c3_16780V3.1" "Pp3c3_16880V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17080V3.1" "Pp3c3_17110V3.1" "Pp3c3_17120V3.1"
[918] "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17340V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1" "Pp3c3_17920V3.1" "Pp3c3_17950V3.1"
[925] "Pp3c3_18090V3.1" "Pp3c3_18310V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1" "Pp3c3_18900V3.1" "Pp3c3_18960V3.1"
[932] "Pp3c3_19080V3.1" "Pp3c3_19130V3.1" "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1" "Pp3c3_19580V3.1" "Pp3c3_19590V3.1"
[939] "Pp3c3_19710V3.1" "Pp3c3_19750V3.1" "Pp3c3_19970V3.1" "Pp3c3_20110V3.1" "Pp3c3_20130V3.1" "Pp3c3_20140V3.1" "Pp3c3_20220V3.1"
[946] "Pp3c3_20370V3.1" "Pp3c3_20390V3.1" "Pp3c3_20400V3.1" "Pp3c3_20410V3.1" "Pp3c3_20660V3.1" "Pp3c3_20980V3.1" "Pp3c3_21020V3.1"
[953] "Pp3c3_21060V3.1" "Pp3c3_21640V3.1" "Pp3c3_21670V3.1" "Pp3c3_21710V3.1" "Pp3c3_21750V3.1" "Pp3c3_21790V3.1" "Pp3c3_22050V3.1"
[960] "Pp3c3_22090V3.1" "Pp3c3_22160V3.1" "Pp3c3_22170V3.1" "Pp3c3_22320V3.1" "Pp3c3_22420V3.1" "Pp3c3_22480V3.1" "Pp3c3_22750V3.1"
[967] "Pp3c3_22990V3.1" "Pp3c3_23220V3.1" "Pp3c3_23240V3.1" "Pp3c3_23250V3.1" "Pp3c3_23290V3.1" "Pp3c3_23320V3.1" "Pp3c3_23340V3.1"
[974] "Pp3c3_23360V3.1" "Pp3c3_23410V3.1" "Pp3c3_23430V3.1" "Pp3c3_23680V3.1" "Pp3c3_23880V3.1" "Pp3c3_23910V3.1" "Pp3c3_23940V3.1"
[981] "Pp3c3_24030V3.1" "Pp3c3_24130V3.1" "Pp3c3_24520V3.1" "Pp3c3_24530V3.1" "Pp3c3_24664V3.1" "Pp3c3_24970V3.1" "Pp3c3_25080V3.1"
[988] "Pp3c3_25260V3.1" "Pp3c3_25360V3.1" "Pp3c3_25400V3.1" "Pp3c3_25610V3.1" "Pp3c3_25940V3.1" "Pp3c3_26340V3.1" "Pp3c3_26400V3.1"
[995] "Pp3c3_26420V3.1" "Pp3c3_26500V3.1" "Pp3c3_26520V3.1" "Pp3c3_26530V3.1" "Pp3c3_26540V3.1" "Pp3c3_26770V3.1"
[ reached getOption("max.print") -- omitted 4944 entries ]
[1] "DEGs edgeR"
[1] 12077
[1] "DEGs deseq2"
[1] 11520
[1] "DEGs noiseq"
[1] 6445
[1] "DEGs noiseqbio"
[1] 7564
[1] "DEGs intersection without direction check (three methods)"
[1] 6384
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_430V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_680V3.1"
[8] "Pp3c1_690V3.1" "Pp3c1_890V3.1" "Pp3c1_900V3.1" "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1260V3.1"
[15] "Pp3c1_1330V3.1" "Pp3c1_1360V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1790V3.1" "Pp3c1_1800V3.1" "Pp3c1_1810V3.1"
[22] "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1" "Pp3c1_2420V3.1"
[29] "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1"
[36] "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1"
[43] "Pp3c1_3750V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1"
[50] "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1"
[57] "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5850V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1"
[64] "Pp3c1_6272V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6640V3.1" "Pp3c1_6930V3.1"
[71] "Pp3c1_7030V3.1" "Pp3c1_7160V3.1" "Pp3c1_7170V3.1" "Pp3c1_7300V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[78] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7590V3.1" "Pp3c1_7710V3.1" "Pp3c1_7720V3.1"
[85] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7880V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1"
[92] "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8280V3.1" "Pp3c1_8530V3.1" "Pp3c1_8550V3.1" "Pp3c1_8870V3.1"
[99] "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1"
[106] "Pp3c1_9630V3.1" "Pp3c1_9790V3.1" "Pp3c1_9860V3.1" "Pp3c1_9970V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1"
[113] "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10620V3.1"
[120] "Pp3c1_10810V3.1" "Pp3c1_10880V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1"
[127] "Pp3c1_11980V3.1" "Pp3c1_12020V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1"
[134] "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_12940V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1"
[141] "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13910V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14740V3.1"
[148] "Pp3c1_14760V3.1" "Pp3c1_14770V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15090V3.1"
[155] "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1"
[162] "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1"
[169] "Pp3c1_16900V3.1" "Pp3c1_16980V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_17870V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1"
[176] "Pp3c1_18260V3.1" "Pp3c1_18420V3.1" "Pp3c1_18440V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1" "Pp3c1_18830V3.1" "Pp3c1_18860V3.1"
[183] "Pp3c1_18910V3.1" "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1" "Pp3c1_19240V3.1" "Pp3c1_19370V3.1"
[190] "Pp3c1_19400V3.1" "Pp3c1_20280V3.1" "Pp3c1_20310V3.1" "Pp3c1_20350V3.1" "Pp3c1_20690V3.1" "Pp3c1_20700V3.1" "Pp3c1_20770V3.1"
[197] "Pp3c1_20880V3.1" "Pp3c1_20960V3.1" "Pp3c1_21050V3.1" "Pp3c1_21160V3.1" "Pp3c1_21200V3.1" "Pp3c1_21230V3.1" "Pp3c1_21290V3.1"
[204] "Pp3c1_21360V3.1" "Pp3c1_21400V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1" "Pp3c1_21550V3.1" "Pp3c1_21650V3.1" "Pp3c1_21730V3.1"
[211] "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_21920V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1" "Pp3c1_22260V3.1"
[218] "Pp3c1_22360V3.1" "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22540V3.1" "Pp3c1_22560V3.1" "Pp3c1_22590V3.1"
[225] "Pp3c1_22710V3.1" "Pp3c1_22900V3.1" "Pp3c1_22950V3.1" "Pp3c1_23000V3.1" "Pp3c1_23010V3.1" "Pp3c1_23040V3.1" "Pp3c1_23190V3.1"
[232] "Pp3c1_23260V3.1" "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1" "Pp3c1_23520V3.1" "Pp3c1_23600V3.1" "Pp3c1_23670V3.1"
[239] "Pp3c1_23750V3.1" "Pp3c1_23850V3.1" "Pp3c1_23900V3.1" "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1" "Pp3c1_24000V3.1"
[246] "Pp3c1_24120V3.1" "Pp3c1_24350V3.1" "Pp3c1_24440V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1" "Pp3c1_24600V3.1" "Pp3c1_24790V3.1"
[253] "Pp3c1_24820V3.1" "Pp3c1_25000V3.1" "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1" "Pp3c1_25400V3.1" "Pp3c1_25410V3.1"
[260] "Pp3c1_25450V3.1" "Pp3c1_25700V3.1" "Pp3c1_25750V3.1" "Pp3c1_25770V3.1" "Pp3c1_25850V3.1" "Pp3c1_25920V3.1" "Pp3c1_25980V3.1"
[267] "Pp3c1_26200V3.1" "Pp3c1_26270V3.1" "Pp3c1_26720V3.1" "Pp3c1_26730V3.1" "Pp3c1_26740V3.1" "Pp3c1_26780V3.1" "Pp3c1_27020V3.1"
[274] "Pp3c1_27160V3.1" "Pp3c1_27230V3.1" "Pp3c1_27270V3.1" "Pp3c1_27440V3.1" "Pp3c1_27510V3.1" "Pp3c1_27630V3.1" "Pp3c1_27830V3.1"
[281] "Pp3c1_27990V3.1" "Pp3c1_28060V3.1" "Pp3c1_28200V3.1" "Pp3c1_28340V3.1" "Pp3c1_28370V3.1" "Pp3c1_28390V3.1" "Pp3c1_28430V3.1"
[288] "Pp3c1_28480V3.1" "Pp3c1_28680V3.1" "Pp3c1_28690V3.1" "Pp3c1_28750V3.1" "Pp3c1_29030V3.1" "Pp3c1_29070V3.1" "Pp3c1_29090V3.1"
[295] "Pp3c1_29440V3.1" "Pp3c1_29460V3.1" "Pp3c1_29500V3.1" "Pp3c1_29560V3.1" "Pp3c1_29630V3.1" "Pp3c1_29650V3.1" "Pp3c1_29770V3.1"
[302] "Pp3c1_29970V3.1" "Pp3c1_30080V3.1" "Pp3c1_30090V3.1" "Pp3c1_30120V3.1" "Pp3c1_30150V3.1" "Pp3c1_30400V3.1" "Pp3c1_30410V3.1"
[309] "Pp3c1_30550V3.1" "Pp3c1_30570V3.1" "Pp3c1_30620V3.1" "Pp3c1_30640V3.1" "Pp3c1_30760V3.1" "Pp3c1_30790V3.1" "Pp3c1_30990V3.1"
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[841] "Pp3c3_1750V3.1" "Pp3c3_1910V3.1" "Pp3c3_2240V3.1" "Pp3c3_2380V3.1" "Pp3c3_2450V3.1" "Pp3c3_2620V3.1" "Pp3c3_2690V3.1"
[848] "Pp3c3_2730V3.1" "Pp3c3_2740V3.1" "Pp3c3_2820V3.1" "Pp3c3_2980V3.1" "Pp3c3_3070V3.1" "Pp3c3_3140V3.1" "Pp3c3_3200V3.1"
[855] "Pp3c3_3290V3.1" "Pp3c3_3490V3.1" "Pp3c3_3510V3.1" "Pp3c3_4090V3.1" "Pp3c3_4100V3.1" "Pp3c3_4140V3.1" "Pp3c3_4160V3.1"
[862] "Pp3c3_4440V3.1" "Pp3c3_4850V3.1" "Pp3c3_4970V3.1" "Pp3c3_5410V3.1" "Pp3c3_5420V3.1" "Pp3c3_5480V3.1" "Pp3c3_5540V3.1"
[869] "Pp3c3_5600V3.1" "Pp3c3_5620V3.1" "Pp3c3_5650V3.1" "Pp3c3_5690V3.1" "Pp3c3_5910V3.1" "Pp3c3_5930V3.1" "Pp3c3_6250V3.1"
[876] "Pp3c3_6370V3.1" "Pp3c3_6480V3.1" "Pp3c3_7020V3.1" "Pp3c3_7040V3.1" "Pp3c3_7160V3.1" "Pp3c3_7180V3.1" "Pp3c3_7370V3.1"
[883] "Pp3c3_7440V3.1" "Pp3c3_7450V3.1" "Pp3c3_7460V3.1" "Pp3c3_7930V3.1" "Pp3c3_8190V3.1" "Pp3c3_8340V3.1" "Pp3c3_8370V3.1"
[890] "Pp3c3_8490V3.1" "Pp3c3_8540V3.1" "Pp3c3_8580V3.1" "Pp3c3_8860V3.1" "Pp3c3_8880V3.1" "Pp3c3_9110V3.1" "Pp3c3_9200V3.1"
[897] "Pp3c3_9350V3.1" "Pp3c3_9470V3.1" "Pp3c3_9640V3.1" "Pp3c3_9650V3.1" "Pp3c3_9760V3.1" "Pp3c3_9810V3.1" "Pp3c3_9850V3.1"
[904] "Pp3c3_9940V3.1" "Pp3c3_9950V3.1" "Pp3c3_9970V3.1" "Pp3c3_9990V3.1" "Pp3c3_10220V3.1" "Pp3c3_10340V3.1" "Pp3c3_10539V3.1"
[911] "Pp3c3_10560V3.1" "Pp3c3_10700V3.1" "Pp3c3_10730V3.1" "Pp3c3_10750V3.1" "Pp3c3_10800V3.1" "Pp3c3_10840V3.1" "Pp3c3_10900V3.1"
[918] "Pp3c3_10940V3.1" "Pp3c3_11090V3.1" "Pp3c3_11140V3.1" "Pp3c3_11210V3.1" "Pp3c3_11230V3.1" "Pp3c3_11640V3.1" "Pp3c3_11650V3.1"
[925] "Pp3c3_11690V3.1" "Pp3c3_11830V3.1" "Pp3c3_11840V3.1" "Pp3c3_11932V3.1" "Pp3c3_12000V3.1" "Pp3c3_12020V3.1" "Pp3c3_12090V3.1"
[932] "Pp3c3_12310V3.1" "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12560V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_12890V3.1"
[939] "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1" "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1"
[946] "Pp3c3_14130V3.1" "Pp3c3_14260V3.1" "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14670V3.1" "Pp3c3_14890V3.1"
[953] "Pp3c3_14920V3.1" "Pp3c3_14940V3.1" "Pp3c3_15010V3.1" "Pp3c3_15040V3.1" "Pp3c3_15300V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1"
[960] "Pp3c3_15470V3.1" "Pp3c3_15530V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1" "Pp3c3_15820V3.1" "Pp3c3_16280V3.1"
[967] "Pp3c3_16290V3.1" "Pp3c3_16430V3.1" "Pp3c3_16780V3.1" "Pp3c3_16880V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17080V3.1"
[974] "Pp3c3_17110V3.1" "Pp3c3_17120V3.1" "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17340V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1"
[981] "Pp3c3_17920V3.1" "Pp3c3_17950V3.1" "Pp3c3_18090V3.1" "Pp3c3_18310V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1"
[988] "Pp3c3_18900V3.1" "Pp3c3_18960V3.1" "Pp3c3_19080V3.1" "Pp3c3_19130V3.1" "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1"
[995] "Pp3c3_19580V3.1" "Pp3c3_19590V3.1" "Pp3c3_19710V3.1" "Pp3c3_19750V3.1" "Pp3c3_19970V3.1" "Pp3c3_20110V3.1"
[ reached getOption("max.print") -- omitted 5384 entries ]
[1] "DEGs intersection with direction check"
[1] 6384
[1] "Pp3c1_40V3.1" "Pp3c1_200V3.1" "Pp3c1_430V3.1" "Pp3c1_470V3.1" "Pp3c1_540V3.1" "Pp3c1_580V3.1" "Pp3c1_680V3.1"
[8] "Pp3c1_690V3.1" "Pp3c1_890V3.1" "Pp3c1_900V3.1" "Pp3c1_950V3.1" "Pp3c1_1000V3.1" "Pp3c1_1160V3.1" "Pp3c1_1260V3.1"
[15] "Pp3c1_1330V3.1" "Pp3c1_1360V3.1" "Pp3c1_1390V3.1" "Pp3c1_1570V3.1" "Pp3c1_1790V3.1" "Pp3c1_1800V3.1" "Pp3c1_1810V3.1"
[22] "Pp3c1_1860V3.1" "Pp3c1_1870V3.1" "Pp3c1_1940V3.1" "Pp3c1_2170V3.1" "Pp3c1_2210V3.1" "Pp3c1_2220V3.1" "Pp3c1_2420V3.1"
[29] "Pp3c1_2540V3.1" "Pp3c1_2920V3.1" "Pp3c1_3040V3.1" "Pp3c1_3160V3.1" "Pp3c1_3180V3.1" "Pp3c1_3200V3.1" "Pp3c1_3210V3.1"
[36] "Pp3c1_3260V3.1" "Pp3c1_3300V3.1" "Pp3c1_3500V3.1" "Pp3c1_3590V3.1" "Pp3c1_3610V3.1" "Pp3c1_3700V3.1" "Pp3c1_3730V3.1"
[43] "Pp3c1_3750V3.1" "Pp3c1_3890V3.1" "Pp3c1_4010V3.1" "Pp3c1_4180V3.1" "Pp3c1_4270V3.1" "Pp3c1_4350V3.1" "Pp3c1_4470V3.1"
[50] "Pp3c1_4600V3.1" "Pp3c1_4750V3.1" "Pp3c1_5050V3.1" "Pp3c1_5300V3.1" "Pp3c1_5320V3.1" "Pp3c1_5460V3.1" "Pp3c1_5570V3.1"
[57] "Pp3c1_5800V3.1" "Pp3c1_5820V3.1" "Pp3c1_5850V3.1" "Pp3c1_5870V3.1" "Pp3c1_6020V3.1" "Pp3c1_6050V3.1" "Pp3c1_6110V3.1"
[64] "Pp3c1_6272V3.1" "Pp3c1_6280V3.1" "Pp3c1_6360V3.1" "Pp3c1_6470V3.1" "Pp3c1_6500V3.1" "Pp3c1_6640V3.1" "Pp3c1_6930V3.1"
[71] "Pp3c1_7030V3.1" "Pp3c1_7160V3.1" "Pp3c1_7170V3.1" "Pp3c1_7300V3.1" "Pp3c1_7360V3.1" "Pp3c1_7370V3.1" "Pp3c1_7380V3.1"
[78] "Pp3c1_7450V3.1" "Pp3c1_7500V3.1" "Pp3c1_7520V3.1" "Pp3c1_7540V3.1" "Pp3c1_7590V3.1" "Pp3c1_7710V3.1" "Pp3c1_7720V3.1"
[85] "Pp3c1_7800V3.1" "Pp3c1_7810V3.1" "Pp3c1_7830V3.1" "Pp3c1_7880V3.1" "Pp3c1_7950V3.1" "Pp3c1_8060V3.1" "Pp3c1_8080V3.1"
[92] "Pp3c1_8110V3.1" "Pp3c1_8170V3.1" "Pp3c1_8190V3.1" "Pp3c1_8280V3.1" "Pp3c1_8530V3.1" "Pp3c1_8550V3.1" "Pp3c1_8870V3.1"
[99] "Pp3c1_8890V3.1" "Pp3c1_9180V3.1" "Pp3c1_9250V3.1" "Pp3c1_9290V3.1" "Pp3c1_9320V3.1" "Pp3c1_9560V3.1" "Pp3c1_9600V3.1"
[106] "Pp3c1_9630V3.1" "Pp3c1_9790V3.1" "Pp3c1_9860V3.1" "Pp3c1_9970V3.1" "Pp3c1_10010V3.1" "Pp3c1_10080V3.1" "Pp3c1_10090V3.1"
[113] "Pp3c1_10100V3.1" "Pp3c1_10220V3.1" "Pp3c1_10400V3.1" "Pp3c1_10470V3.1" "Pp3c1_10540V3.1" "Pp3c1_10570V3.1" "Pp3c1_10620V3.1"
[120] "Pp3c1_10810V3.1" "Pp3c1_10880V3.1" "Pp3c1_10970V3.1" "Pp3c1_11030V3.1" "Pp3c1_11050V3.1" "Pp3c1_11090V3.1" "Pp3c1_11190V3.1"
[127] "Pp3c1_11980V3.1" "Pp3c1_12020V3.1" "Pp3c1_12140V3.1" "Pp3c1_12470V3.1" "Pp3c1_12610V3.1" "Pp3c1_12630V3.1" "Pp3c1_12790V3.1"
[134] "Pp3c1_12810V3.1" "Pp3c1_12850V3.1" "Pp3c1_12860V3.1" "Pp3c1_12940V3.1" "Pp3c1_13120V3.1" "Pp3c1_13170V3.1" "Pp3c1_13308V3.1"
[141] "Pp3c1_13570V3.1" "Pp3c1_13670V3.1" "Pp3c1_13671V3.1" "Pp3c1_13910V3.1" "Pp3c1_14230V3.1" "Pp3c1_14330V3.1" "Pp3c1_14740V3.1"
[148] "Pp3c1_14760V3.1" "Pp3c1_14770V3.1" "Pp3c1_14800V3.1" "Pp3c1_14870V3.1" "Pp3c1_14910V3.1" "Pp3c1_15010V3.1" "Pp3c1_15090V3.1"
[155] "Pp3c1_15150V3.1" "Pp3c1_15160V3.1" "Pp3c1_15210V3.1" "Pp3c1_15400V3.1" "Pp3c1_15410V3.1" "Pp3c1_15690V3.1" "Pp3c1_15730V3.1"
[162] "Pp3c1_15750V3.1" "Pp3c1_15940V3.1" "Pp3c1_16250V3.1" "Pp3c1_16500V3.1" "Pp3c1_16780V3.1" "Pp3c1_16840V3.1" "Pp3c1_16850V3.1"
[169] "Pp3c1_16900V3.1" "Pp3c1_16980V3.1" "Pp3c1_17080V3.1" "Pp3c1_17220V3.1" "Pp3c1_17870V3.1" "Pp3c1_18130V3.1" "Pp3c1_18150V3.1"
[176] "Pp3c1_18260V3.1" "Pp3c1_18420V3.1" "Pp3c1_18440V3.1" "Pp3c1_18460V3.1" "Pp3c1_18530V3.1" "Pp3c1_18830V3.1" "Pp3c1_18860V3.1"
[183] "Pp3c1_18910V3.1" "Pp3c1_18940V3.1" "Pp3c1_19060V3.1" "Pp3c1_19210V3.1" "Pp3c1_19230V3.1" "Pp3c1_19240V3.1" "Pp3c1_19370V3.1"
[190] "Pp3c1_19400V3.1" "Pp3c1_20280V3.1" "Pp3c1_20310V3.1" "Pp3c1_20350V3.1" "Pp3c1_20690V3.1" "Pp3c1_20700V3.1" "Pp3c1_20770V3.1"
[197] "Pp3c1_20880V3.1" "Pp3c1_20960V3.1" "Pp3c1_21050V3.1" "Pp3c1_21160V3.1" "Pp3c1_21200V3.1" "Pp3c1_21230V3.1" "Pp3c1_21290V3.1"
[204] "Pp3c1_21360V3.1" "Pp3c1_21400V3.1" "Pp3c1_21480V3.1" "Pp3c1_21540V3.1" "Pp3c1_21550V3.1" "Pp3c1_21650V3.1" "Pp3c1_21730V3.1"
[211] "Pp3c1_21760V3.1" "Pp3c1_21810V3.1" "Pp3c1_21890V3.1" "Pp3c1_21920V3.1" "Pp3c1_22090V3.1" "Pp3c1_22120V3.1" "Pp3c1_22260V3.1"
[218] "Pp3c1_22360V3.1" "Pp3c1_22450V3.1" "Pp3c1_22500V3.1" "Pp3c1_22520V3.1" "Pp3c1_22540V3.1" "Pp3c1_22560V3.1" "Pp3c1_22590V3.1"
[225] "Pp3c1_22710V3.1" "Pp3c1_22900V3.1" "Pp3c1_22950V3.1" "Pp3c1_23000V3.1" "Pp3c1_23010V3.1" "Pp3c1_23040V3.1" "Pp3c1_23190V3.1"
[232] "Pp3c1_23260V3.1" "Pp3c1_23300V3.1" "Pp3c1_23410V3.1" "Pp3c1_23490V3.1" "Pp3c1_23520V3.1" "Pp3c1_23600V3.1" "Pp3c1_23670V3.1"
[239] "Pp3c1_23750V3.1" "Pp3c1_23850V3.1" "Pp3c1_23900V3.1" "Pp3c1_23930V3.1" "Pp3c1_23960V3.1" "Pp3c1_23970V3.1" "Pp3c1_24000V3.1"
[246] "Pp3c1_24120V3.1" "Pp3c1_24350V3.1" "Pp3c1_24440V3.1" "Pp3c1_24500V3.1" "Pp3c1_24560V3.1" "Pp3c1_24600V3.1" "Pp3c1_24790V3.1"
[253] "Pp3c1_24820V3.1" "Pp3c1_25000V3.1" "Pp3c1_25070V3.1" "Pp3c1_25080V3.1" "Pp3c1_25290V3.1" "Pp3c1_25400V3.1" "Pp3c1_25410V3.1"
[260] "Pp3c1_25450V3.1" "Pp3c1_25700V3.1" "Pp3c1_25750V3.1" "Pp3c1_25770V3.1" "Pp3c1_25850V3.1" "Pp3c1_25920V3.1" "Pp3c1_25980V3.1"
[267] "Pp3c1_26200V3.1" "Pp3c1_26270V3.1" "Pp3c1_26720V3.1" "Pp3c1_26730V3.1" "Pp3c1_26740V3.1" "Pp3c1_26780V3.1" "Pp3c1_27020V3.1"
[274] "Pp3c1_27160V3.1" "Pp3c1_27230V3.1" "Pp3c1_27270V3.1" "Pp3c1_27440V3.1" "Pp3c1_27510V3.1" "Pp3c1_27630V3.1" "Pp3c1_27830V3.1"
[281] "Pp3c1_27990V3.1" "Pp3c1_28060V3.1" "Pp3c1_28200V3.1" "Pp3c1_28340V3.1" "Pp3c1_28370V3.1" "Pp3c1_28390V3.1" "Pp3c1_28430V3.1"
[288] "Pp3c1_28480V3.1" "Pp3c1_28680V3.1" "Pp3c1_28690V3.1" "Pp3c1_28750V3.1" "Pp3c1_29030V3.1" "Pp3c1_29070V3.1" "Pp3c1_29090V3.1"
[295] "Pp3c1_29440V3.1" "Pp3c1_29460V3.1" "Pp3c1_29500V3.1" "Pp3c1_29560V3.1" "Pp3c1_29630V3.1" "Pp3c1_29650V3.1" "Pp3c1_29770V3.1"
[302] "Pp3c1_29970V3.1" "Pp3c1_30080V3.1" "Pp3c1_30090V3.1" "Pp3c1_30120V3.1" "Pp3c1_30150V3.1" "Pp3c1_30400V3.1" "Pp3c1_30410V3.1"
[309] "Pp3c1_30550V3.1" "Pp3c1_30570V3.1" "Pp3c1_30620V3.1" "Pp3c1_30640V3.1" "Pp3c1_30760V3.1" "Pp3c1_30790V3.1" "Pp3c1_30990V3.1"
[316] "Pp3c1_31250V3.1" "Pp3c1_31280V3.1" "Pp3c1_31440V3.1" "Pp3c1_31520V3.1" "Pp3c1_31540V3.1" "Pp3c1_31630V3.1" "Pp3c1_31680V3.1"
[323] "Pp3c1_31720V3.1" "Pp3c1_31730V3.1" "Pp3c1_31850V3.1" "Pp3c1_31930V3.1" "Pp3c1_32090V3.1" "Pp3c1_32170V3.1" "Pp3c1_32190V3.1"
[330] "Pp3c1_32200V3.1" "Pp3c1_32230V3.1" "Pp3c1_32330V3.1" "Pp3c1_32350V3.1" "Pp3c1_32440V3.1" "Pp3c1_32520V3.1" "Pp3c1_32740V3.1"
[337] "Pp3c1_32750V3.1" "Pp3c1_32760V3.1" "Pp3c1_32770V3.1" "Pp3c1_32910V3.1" "Pp3c1_32920V3.1" "Pp3c1_33030V3.1" "Pp3c1_33050V3.1"
[344] "Pp3c1_33120V3.1" "Pp3c1_33150V3.1" "Pp3c1_33300V3.1" "Pp3c1_33440V3.1" "Pp3c1_33460V3.1" "Pp3c1_33470V3.1" "Pp3c1_33480V3.1"
[351] "Pp3c1_33790V3.1" "Pp3c1_33830V3.1" "Pp3c1_33890V3.1" "Pp3c1_34210V3.1" "Pp3c1_34240V3.1" "Pp3c1_34390V3.1" "Pp3c1_34400V3.1"
[358] "Pp3c1_34410V3.1" "Pp3c1_35100V3.1" "Pp3c1_35120V3.1" "Pp3c1_35170V3.1" "Pp3c1_35260V3.1" "Pp3c1_35460V3.1" "Pp3c1_35630V3.1"
[365] "Pp3c1_35990V3.1" "Pp3c1_36000V3.1" "Pp3c1_36050V3.1" "Pp3c1_36070V3.1" "Pp3c1_36080V3.1" "Pp3c1_36100V3.1" "Pp3c1_36129V3.1"
[372] "Pp3c1_36270V3.1" "Pp3c1_36390V3.1" "Pp3c1_36410V3.1" "Pp3c1_36440V3.1" "Pp3c1_36580V3.1" "Pp3c1_37320V3.1" "Pp3c1_37360V3.1"
[379] "Pp3c1_37420V3.1" "Pp3c1_37660V3.1" "Pp3c1_37980V3.1" "Pp3c1_38210V3.1" "Pp3c1_38250V3.1" "Pp3c1_38600V3.1" "Pp3c1_38630V3.1"
[386] "Pp3c1_38677V3.1" "Pp3c1_38770V3.1" "Pp3c1_38880V3.1" "Pp3c1_38950V3.1" "Pp3c1_38960V3.1" "Pp3c1_38970V3.1" "Pp3c1_39100V3.1"
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[918] "Pp3c3_10940V3.1" "Pp3c3_11090V3.1" "Pp3c3_11140V3.1" "Pp3c3_11210V3.1" "Pp3c3_11230V3.1" "Pp3c3_11640V3.1" "Pp3c3_11650V3.1"
[925] "Pp3c3_11690V3.1" "Pp3c3_11830V3.1" "Pp3c3_11840V3.1" "Pp3c3_11932V3.1" "Pp3c3_12000V3.1" "Pp3c3_12020V3.1" "Pp3c3_12090V3.1"
[932] "Pp3c3_12310V3.1" "Pp3c3_12490V3.1" "Pp3c3_12510V3.1" "Pp3c3_12560V3.1" "Pp3c3_12760V3.1" "Pp3c3_12870V3.1" "Pp3c3_12890V3.1"
[939] "Pp3c3_13130V3.1" "Pp3c3_13190V3.1" "Pp3c3_13220V3.1" "Pp3c3_13280V3.1" "Pp3c3_13470V3.1" "Pp3c3_13550V3.1" "Pp3c3_14080V3.1"
[946] "Pp3c3_14130V3.1" "Pp3c3_14260V3.1" "Pp3c3_14430V3.1" "Pp3c3_14480V3.1" "Pp3c3_14510V3.1" "Pp3c3_14670V3.1" "Pp3c3_14890V3.1"
[953] "Pp3c3_14920V3.1" "Pp3c3_14940V3.1" "Pp3c3_15010V3.1" "Pp3c3_15040V3.1" "Pp3c3_15300V3.1" "Pp3c3_15330V3.1" "Pp3c3_15360V3.1"
[960] "Pp3c3_15470V3.1" "Pp3c3_15530V3.1" "Pp3c3_15560V3.1" "Pp3c3_15780V3.1" "Pp3c3_15800V3.1" "Pp3c3_15820V3.1" "Pp3c3_16280V3.1"
[967] "Pp3c3_16290V3.1" "Pp3c3_16430V3.1" "Pp3c3_16780V3.1" "Pp3c3_16880V3.1" "Pp3c3_16990V3.1" "Pp3c3_17070V3.1" "Pp3c3_17080V3.1"
[974] "Pp3c3_17110V3.1" "Pp3c3_17120V3.1" "Pp3c3_17260V3.1" "Pp3c3_17280V3.1" "Pp3c3_17340V3.1" "Pp3c3_17750V3.1" "Pp3c3_17910V3.1"
[981] "Pp3c3_17920V3.1" "Pp3c3_17950V3.1" "Pp3c3_18090V3.1" "Pp3c3_18310V3.1" "Pp3c3_18750V3.1" "Pp3c3_18760V3.1" "Pp3c3_18790V3.1"
[988] "Pp3c3_18900V3.1" "Pp3c3_18960V3.1" "Pp3c3_19080V3.1" "Pp3c3_19130V3.1" "Pp3c3_19300V3.1" "Pp3c3_19510V3.1" "Pp3c3_19550V3.1"
[995] "Pp3c3_19580V3.1" "Pp3c3_19590V3.1" "Pp3c3_19710V3.1" "Pp3c3_19750V3.1" "Pp3c3_19970V3.1" "Pp3c3_20110V3.1"
[ reached getOption("max.print") -- omitted 5384 entries ]
runs/RNA-Seq_analysis/DEGs/DEGs_0.9/spa_L_WT_D/DESeq2/spa_L vs. WT_D_11520_DESeq2_fdr.tsv 0 → 100755
View file @ 8ebefab1
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