diff --git a/README.md b/README.md index d7aeb0ef917f6457d4ef97076c2ad7a8e9ee2ea6..4d1aefae83079bc5442015f675defa7410b27caf 100644 --- a/README.md +++ b/README.md @@ -8,103 +8,3 @@ - Adapted from > Brilhaus, D., Bräutigam, A., Mettler-Altmann, T., Winter, K., and Weber, A.P.M. (2016). Reversible Burst of Transcriptional Changes during Induction of Crassulacean Acid Metabolism in *Talinum triangulare*. Plant Physiology 170: 102–122. https://doi.org/10.1104/pp.15.01076 - [studies/TalinumGenomeDraft](./studies/TalinumGenomeDraft) originates from https://git.nfdi4plants.org/hhu-plant-biochemistry/talinum-fruticosum-genome - -<!-- ## RNASeq Workflow overview --> -<!-- - --> - -## Sample Flow Overview - -```mermaid - -graph LR; - -style studies/TalinumFacultativeCAM fill:#b4ce82 - -style assays/Talinum_RNASeq_minimal fill:#ffc000 -style assays/GCqTOF_targets fill:#ffc000 - -subgraph studies/TalinumFacultativeCAM - - DB_097 --plant_material.md--> CAM_01 - DB_099 --plant_material.md--> CAM_02 - DB_103 --plant_material.md--> CAM_03 - DB_161 --plant_material.md--> reC3_01 - DB_163 --plant_material.md--> reC3_02 - DB_165 --plant_material.md--> reC3_03 -end - -subgraph assays/Talinum_RNASeq_minimal - - CAM_01 --rna_extraction.md--> CAM_01_ext - CAM_02 --rna_extraction.md--> CAM_02_ext - CAM_03 --rna_extraction.md--> CAM_03_ext - reC3_01 --rna_extraction.md--> reC3_01_ext - reC3_02 --rna_extraction.md--> reC3_02_ext - reC3_03 --rna_extraction.md--> reC3_03_ext - - CAM_01_ext --illumina.md--> DB_097_CAMMD_CAGATC_L001_R1_001.fastq.gz - CAM_02_ext --illumina.md--> DB_099_CAMMD_CTTGTA_L001_R1_001.fastq.gz - CAM_03_ext --illumina.md--> DB_103_CAMMD_AGTCAA_L001_R1_001.fastq.gz - reC3_01_ext --illumina.md--> DB_161_reC3MD_GTCCGC_L001_R1_001.fastq.gz - reC3_02_ext --illumina.md--> DB_163_reC3MD_GTGAAA_L001_R1_001.fastq.gz - reC3_03_ext --illumina.md--> DB_165_re-C3MD_GTGAAA_L002_R1_001.fastq.gz -end - -subgraph assays/GCqTOF_targets - - CAM_01 --metabolite_extraction.md--> DB23 - CAM_02 --metabolite_extraction.md--> DB24 - CAM_03 --metabolite_extraction.md--> DB26 - reC3_01 --metabolite_extraction.md--> DB39 - reC3_02 --metabolite_extraction.md--> DB40 - reC3_03 --metabolite_extraction.md--> DB41 - - Std.Mix5µM --gas_chromatography.md--> 150112_03 - Std.Mix5µM --gas_chromatography.md--> 150112_04 - blank1 --gas_chromatography.md--> 150112_15 - blank1 --gas_chromatography.md--> 150112_16 - DB23 --gas_chromatography.md--> 150112_55 - DB23 --gas_chromatography.md--> 150112_56 - DB24 --gas_chromatography.md--> 150112_61 - DB24 --gas_chromatography.md--> 150112_62 - DB26 --gas_chromatography.md--> 150112_65 - DB26 --gas_chromatography.md--> 150112_66 - Std.Mix5µM --gas_chromatography.md--> 150115_03 - Std.Mix5µM --gas_chromatography.md--> 150115_04 - DB39 --gas_chromatography.md--> 150115_11 - DB39 --gas_chromatography.md--> 150115_12 - DB40 --gas_chromatography.md--> 150115_13 - DB40 --gas_chromatography.md--> 150115_14 - DB41 --gas_chromatography.md--> 150115_15 - DB41 --gas_chromatography.md--> 150115_16 - blank2 --gas_chromatography.md--> 150115_25 - blank2 --gas_chromatography.md--> 150115_26 - - 150112_03 --mass_spec.md--> 150112_03.D - 150112_04 --mass_spec.md--> 150112_04.D - 150112_15 --mass_spec.md--> 150112_15.D - 150112_16 --mass_spec.md--> 150112_16.D - 150112_55 --mass_spec.md--> 150112_55.D - 150112_56 --mass_spec.md--> 150112_56.D - 150112_61 --mass_spec.md--> 150112_61.D - 150112_62 --mass_spec.md--> 150112_62.D - 150112_65 --mass_spec.md--> 150112_65.D - 150112_66 --mass_spec.md--> 150112_66.D - 150115_03 --mass_spec.md--> 150115_03.D - 150115_04 --mass_spec.md--> 150115_04.D - 150115_11 --mass_spec.md--> 150115_11.D - 150115_12 --mass_spec.md--> 150115_12.D - 150115_13 --mass_spec.md--> 150115_13.D - 150115_14 --mass_spec.md--> 150115_14.D - 150115_15 --mass_spec.md--> 150115_15.D - 150115_16 --mass_spec.md--> 150115_16.D - 150115_25 --mass_spec.md--> 150115_25.D - 150115_26 --mass_spec.md--> 150115_26.D - -end - -``` - - -test \ No newline at end of file