Commits · main · Samuel Ortion / FTAG-Finder

Browse files

May 27, 2025
- Remove | in type for py 3.9 · 8109f1bd
  Samuel Ortion authored May 27, 2025
  
  8109f1bd
- Add subsample awk script · 5b15c77e
  Samuel Ortion authored May 27, 2025
  
  5b15c77e
- Update test config · fc5c382b
  Samuel Ortion authored May 27, 2025
  
  fc5c382b
May 26, 2025
- Fix conda recipe documentation · b4ca73d3
  Samuel Ortion authored May 26, 2025
  
  b4ca73d3
May 09, 2025
- Amend a little bit the documentation · b82a788a
  Samuel Ortion authored May 09, 2025
  
  b82a788a
Jan 24, 2025
- Merge branch 'dev' into 'main' · 6619f139
  Samuel Ortion authored Jan 24, 2025
  6619f139
Jan 21, 2025
- Fix missing $ in Makefile · 8dea6c2e
  Samuel Ortion authored Jan 21, 2025
  
  8dea6c2e
Jun 27, 2024
- Remove TODO · 4d8f4c88
  Samuel Ortion authored Jun 27, 2024
  
  4d8f4c88
Jun 06, 2024
- feat: Add mergeBlast to this repository · 5070e1f6
  Samuel Ortion authored Jun 06, 2024
  
  5070e1f6
Jun 04, 2024
- Bulk update · 12d1e042
  Samuel Ortion authored Jun 04, 2024
  12d1e042
Jun 03, 2024
- Update creation list module · 94339dad
  Samuel Ortion authored Jun 03, 2024
  94339dad
May 31, 2024
- feat: Abandon perl in favor of Python · c0f845a2
  Samuel Ortion authored May 31, 2024
  
  c0f845a2
May 28, 2024
- Add creation list rules · 5f94c452
  Samuel Ortion authored May 28, 2024
  
  5f94c452
- feat: Add some base gene pairs creation scripts · eb512a5a
  Samuel Ortion authored May 28, 2024
  
  eb512a5a
- feat: Add a script to generate all gene pairs · a38fe0da
  Samuel Ortion authored May 28, 2024
  
  a38fe0da
May 24, 2024
- feat: promote mcl_to_family_mapping to standalone script · 0430b6aa
  Samuel Ortion authored May 24, 2024
  
  0430b6aa
May 23, 2024
- feat: List pairs of genes of the same TAG · 3b7e8758
  Samuel Ortion authored May 23, 2024
  
  3b7e8758
May 22, 2024
- refactor: Rename gff3-to-TAG_Finder-table to gff3_to_TAG-Finder_table · f4b74c9a
  Samuel Ortion authored May 22, 2024
  
  f4b74c9a
May 21, 2024
- feat: Intra family gene pairs · 07fbbe33
  Samuel Ortion authored May 21, 2024
  07fbbe33
- doc: Slight typo · c3be4c03
  Samuel Ortion authored May 21, 2024
  
  c3be4c03
- fix: Doc presented density as a percentage: it is a proportion · 03d936fc
  Samuel Ortion authored May 21, 2024
  
  03d936fc
- doc: Amend README · 038cd3ba
  Samuel Ortion authored May 17, 2024
  038cd3ba
- feat: Generate a list of random gene pairs · de8cae17
  Samuel Ortion authored May 21, 2024
  
  de8cae17
- feat: An awk script for all pairs of adjacent genes · 18b3168f
  Samuel Ortion authored May 21, 2024
  18b3168f
May 18, 2024
- fix: Skip header from ABC in mcl · cb33e640
  Samuel Ortion authored May 18, 2024
  
  cb33e640
May 17, 2024
- fix: move alignment methods rules under if condition · 2a1b9533
  Samuel Ortion authored May 17, 2024
  2a1b9533
- feat: Add support for legacy blastall · 39cc5aeb
  Samuel Ortion authored May 17, 2024
  
  39cc5aeb
May 16, 2024
- fix: Attempt to fix familysplit function in Walktrap.R · b09321bb
  Samuel Ortion authored May 16, 2024
  
  b09321bb
May 15, 2024
- fix: adapt rule for detect_TAGs · c5c10489
  Samuel Ortion authored May 15, 2024
  
  c5c10489
- fix: TAG numbering does not care about the chromosome the TAG is on · 9e3f45ad
  Samuel Ortion authored May 15, 2024
  
  9e3f45ad
- Why making use of a list, when a simple integer is sufficient? · 25f5a7b2
  Samuel Ortion authored May 15, 2024
  
  25f5a7b2
- rm: unused Snakemake wrappers · 8908feef
  Samuel Ortion authored May 15, 2024
  
  8908feef
May 14, 2024
- fix: find_homologs, protein_id_is_gene_id, and gff3 to features tsv for Ensembl · b192d0b9
  Samuel Ortion authored May 14, 2024
  
  b192d0b9
- Update mergeBlast conda env · a33c2245
  Samuel Ortion authored May 14, 2024
  
  a33c2245
- remove test dataset and provide a downloader script · e9cc33a1
  Samuel Ortion authored May 14, 2024
  
  e9cc33a1
- fix: find_homologs · caae34d3
  Samuel Ortion authored May 14, 2024
  caae34d3
- feat: Add Walktrap 'enhanced' clustering · 74fbe7cb
  Samuel Ortion authored May 14, 2024
  74fbe7cb
- way: Walktrap.R · 8339ce8d
  Samuel Ortion authored Apr 30, 2024 and Samuel Ortion committed May 14, 2024
  8339ce8d
- Add Changelog · 659b6721
  Samuel Ortion authored May 14, 2024
  
  659b6721
- feat: Add simple and naive GFF3 to legacy txt format for detect_TAGs · fcb2bdbc
  Samuel Ortion authored May 14, 2024
  
  fcb2bdbc