Commits · v1.14 · Alexis Mergez / Pan1c

Feb 10, 2025
- Release 1.14, added check input script, modified Snakefile so that Syri... · 9ac36bf5
  RACOUPEAU MARTIN authored 1 month ago
  
  Release 1.14, added check input script, modified Snakefile so that Syri inherits ragtag minimap options
  v1.14
  
  9ac36bf5
Dec 11, 2024
- Updated README · 08cc84d7
  Alexis Mergez authored 3 months ago
  
  08cc84d7
- Relaxed naming scheme for sequences · b3c7eb90
  Alexis Mergez authored 3 months ago
  
  b3c7eb90
Dec 09, 2024
- Fixed get_MC error in getTags.py · a4228141
  Alexis Mergez authored 3 months ago
  
  a4228141
Dec 06, 2024
- Typo · cc3ccbcf
  Alexis Mergez authored 3 months ago
  
  BGZIP2 instead of BGZIP
  cc3ccbcf
Dec 03, 2024
- Adapted docstring syntax · f228fc62
  Alexis Mergez authored 3 months ago
  
  f228fc62
- Removed PAV generation rule · 6ee34789
  Alexis Mergez authored 3 months ago
  
  6ee34789
- Documented every rules · f34b5a8a
  Alexis Mergez authored 3 months ago
  
  f34b5a8a
- Continuing to add documentation · dc144d32
  Alexis Mergez authored 3 months ago
  
  - Removing unused rules (PAV, core statistics, ...)
  dc144d32
Nov 29, 2024
- Continuing the documentation · 65b91c09
  Alexis Mergez authored 3 months ago
  
  65b91c09
- Adding some documentation to rules · acb604d7
  Alexis Mergez authored 3 months ago
  
  acb604d7
- Merge branch 'dev' of https://forgemia.inra.fr/alexis.mergez/pan1chr into dev · 5502fbf6
  Alexis Mergez authored 3 months ago
  
  5502fbf6
- Reworked config.yaml · c214ca04
  Alexis Mergez authored 3 months ago
  
  - Reordered parameters - Added option to run PGGB - PGGB can now be easily deactivated
  c214ca04
Nov 19, 2024
- Fixed MC_graph memory request · 54884d8b
  Alexis Mergez authored 3 months ago
  
  54884d8b
Nov 18, 2024
- Readded report_fig rule · 19cb0127
  Alexis Mergez authored 3 months ago
  
  19cb0127
- Fixed graph_json rule · 1934af2d
  Alexis Mergez authored 3 months ago
  
  1934af2d
- Fixed graph_squeeze rule · 2dc055bf
  Alexis Mergez authored 3 months ago
  
  2dc055bf
- Fixed quast rule · 2b31ff7c
  Alexis Mergez authored 3 months ago
  
  2b31ff7c
- Updated config files · e724c442
  Alexis Mergez authored 3 months ago
  
  e724c442
- Removed legacy report and added benchmark for snakemake · e243329a
  Alexis Mergez authored 3 months ago
  
  e243329a
Nov 15, 2024
- Typo · a10e5a2a
  Alexis Mergez authored 3 months ago
  
  a10e5a2a
- Fixed rule all · 666ca9bd
  Alexis Mergez authored 3 months ago
  
  666ca9bd
- Added doc to Pan1c-view tarball · 9ed9e724
  Alexis Mergez authored 3 months ago
  
  9ed9e724
- Update Snakefile · 727da110
  Alexis Mergez authored 3 months ago
  
  727da110
- Some changes for Pan1c-View · 0849383d
  Alexis Mergez authored 3 months ago
  
  0849383d
- New documentation for Pan1c-View · aa988011
  Alexis Mergez authored 3 months ago
  
  aa988011
- Started description JSON · 1b0fceef
  Alexis Mergez authored 3 months ago
  
  1b0fceef
Nov 14, 2024
- Added MC apptainer image · 76c22802
  Alexis Mergez authored 4 months ago
  
  76c22802
Nov 12, 2024
- Fixed syri figures path in asm JSON · fa2f10b6
  Alexis Mergez authored 4 months ago
  
  fa2f10b6
- Fixed missing numpy import · dae94a53
  Alexis Mergez authored 4 months ago
  
  dae94a53
Nov 08, 2024
- Fixed key error in getTags.py · 95fac73c
  Alexis Mergez authored 4 months ago
  
  95fac73c
- Added diff table to graph_json · 606d6934
  Alexis Mergez authored 4 months ago
  
  606d6934
- Fixed path to figures in ASM_JSON · e8436731
  Alexis Mergez authored 4 months ago
  
  e8436731
- Fixed syri_vcf_2_tsv · f69d3c31
  Alexis Mergez authored 4 months ago
  
  f69d3c31
- Fixed issue with pan1c-view rule inputs · 15f7895c
  Alexis Mergez authored 4 months ago
  
  15f7895c
- Adding graphs to Pan1c-View tarball · 8f8c72c8
  Alexis Mergez authored 4 months ago
  
  8f8c72c8
- Added paths to relevant files in summary json · b2afb7a9
  Alexis Mergez authored 4 months ago
  
  b2afb7a9
Nov 07, 2024
- Adding JSONs to Pan1c-View tarball · f6373485
  Alexis Mergez authored 4 months ago
  
  f6373485
Nov 05, 2024
- Cahnged VCF creation config · 27bd6f04
  Alexis Mergez authored 4 months ago
  
  27bd6f04
- Updated Pan1c_View_data rule · 81062245
  Alexis Mergez authored 4 months ago
  
  81062245