Commits · c8935c6b0e9814c86d53736fec845fd056ebb546 · PHIM / RNAja-pipeline

Mar 27, 2024
- fixing minor bug in output path of rule hseq_todiffex · c8935c6b
  julie.orjuela_ird.fr authored 1 year ago
  
  c8935c6b
Mar 26, 2024
- comment sample_info into the snakefile and minor modifs on readme · e1928a57
  julie.orjuela_ird.fr authored 1 year ago
  
  e1928a57
Mar 22, 2024
- add control on module, remove PAIRED from config, correct some bug, one rule for hisat2_map · 5688a478
  aurore.comte_ird.fr authored 1 year ago
  
  5688a478
Mar 13, 2024
- minor changes in doc and samples_info files to automatic test · 503945c4
  julie.orjuela_ird.fr authored 1 year ago
  
  503945c4
Mar 12, 2024
- correction de bug: single ne marche pas · 4e0a4b94
  aurore.comte_ird.fr authored 1 year ago
  
  4e0a4b94
- changing aurore path to DATA_DIR in config paired and single files · 7aa11e5f
  julie.orjuela_ird.fr authored 1 year ago
  
  7aa11e5f
- changing DATA by DATA_DIR in config.yaml · 13f7002a
  julie.orjuela_ird.fr authored 1 year ago
  
  13f7002a
Mar 08, 2024
- add logo, change config file, modify multiqc rule · ba84a572
  aurore.comte_ird.fr authored 1 year ago
  
  ba84a572
Feb 16, 2024
- the names of the output files for diffex contain now the name of the counting tool · 05e6f6e7
  aurore.comte_ird.fr authored 1 year ago
  
  05e6f6e7
Feb 15, 2024
- correct bug qui mettait une virgule à la fin de chaque ligne dans le fichier de comptage star_star · 68a3fea8
  aurore.comte_ird.fr authored 1 year ago
  
  68a3fea8
- remove a print · 7b0fb24e
  aurore.comte_ird.fr authored 1 year ago
  
  7b0fb24e
- Homogéneisation des fichiers csv de comptage · fd3ecc08
  aurore.comte_ird.fr authored 1 year ago
  
  fd3ecc08
Feb 14, 2024
- FEA: ajout de l'outil HTSEQ-COUNT · 51ba1872
  aurore.comte_ird.fr authored 1 year ago
  
  51ba1872
- FEA-TEST: ajout de l'outil STAR · e8048068
  aurore.comte_ird.fr authored 1 year ago
  
  e8048068
- bug correction in rule star_to_diffex and modif rule multiqc · 7f474c32
  aurore.comte_ird.fr authored 1 year ago
  
  7f474c32
- bug correction in rule star_to_diffex · b1569a3f
  aurore.comte_ird.fr authored 1 year ago
  
  b1569a3f
- -bug correction in rule star_map_count · 4e2be497
  aurore.comte_ird.fr authored 1 year ago
  
  -remove todo
  4e2be497
- - add rule star_to_diffex to merge star count file output · 8baa5a2c
  aurore.comte_ird.fr authored 1 year ago
  
  - modification of stringtie rules to use hisat2 output and star output - add in config file the possibility to use the pipeline in one shot or in comparison mode
  8baa5a2c
Feb 13, 2024
- add rule for star to do mapping and count · be5f7db5
  aurore.comte_ird.fr authored 1 year ago
  
  be5f7db5
Feb 12, 2024
- correct bugs: · 5057fc88
  aurore.comte_ird.fr authored 1 year ago
  
  - fastq.gz should be uncompressed for star - changer genomedir for star mapping
  5057fc88
- Start the integration of STAR as mapper. · 673252db
  aurore.comte_ird.fr authored 1 year ago
  
  - 1 rule index - 1 rule star_single - 1 rule star_paired add star in singularity
  673252db
Feb 09, 2024
- correct bug in multiqc and mapping stats + delete fastqc rule · a92f843b
  aurore.comte_ird.fr authored 1 year ago
  
  a92f843b
- paired-TEST: add paired=true in config file · 13d335dc
  aurore.comte_ird.fr authored 1 year ago
  
  13d335dc
- TEST-TEST: move test config · 8433a404
  aurore.comte_ird.fr authored 1 year ago
  
  8433a404
- add gitlab.ci.yaml · 3dd6ce67
  aurore.comte_ird.fr authored 1 year ago
  
  3dd6ce67
Jan 26, 2024
- managing paired and single, cleaning code on snakefile and manage import of library and class · b47af2af
  julie.orjuela_ird.fr authored 1 year ago
  
  b47af2af
Jan 19, 2024
- FEA: modifie snakefile variables for snakeckdysis integration · c192acbc
  aurore.comte_ird.fr authored 1 year ago
  
  c192acbc
- FEA : renomage snakemake scripts · aa0713e2
  aurore.comte_ird.fr authored 1 year ago
  
  aa0713e2
- FEA: adding snakecdysis to RNAja pipeline · 902dea06
  julie.orjuela_ird.fr authored 1 year ago
  
  902dea06
May 23, 2022
- correct bug · b1442cb3
  Aucomte authored 2 years ago
  
  b1442cb3
May 20, 2022
- update · 59577497
  Aucomte authored 2 years ago
  
  59577497
Mar 04, 2022
- Rscript to make diffexdb files · b09b6c1d
  aucomte authored 3 years ago
  
  b09b6c1d
- container directory rename · 197b901a
  aucomte authored 3 years ago
  
  197b901a
- container directory rename · 756431fc
  aucomte authored 3 years ago
  
  756431fc
- ajout script bash · e1bde7af
  aucomte authored 3 years ago
  
  e1bde7af
- Update install.py · 6191c2de
  Aurore Comte authored 3 years ago
  
  Unverified
  
  6191c2de
- Update install.py · 29135583
  Aurore Comte authored 3 years ago
  
  Unverified
  
  29135583
Mar 02, 2022
- update doc · 928ede84
  aucomte authored 3 years ago
  
  928ede84
- update · e59f8f10
  aucomte authored 3 years ago
  
  e59f8f10
- update · 36f89a17
  aucomte authored 3 years ago
  
  36f89a17