Commits · 3328c6238c81017fbefd7e920af7ebba93cae180 · Omnicrobe / Extended Microorganisms Taxonomy

Mar 25, 2022
- added generic NER plans · 3328c623
  Robert Bossy authored 3 years ago
  
  3328c623
- reject single-character names, Ala and bacterium · dc2143e5
  Robert Bossy authored 3 years ago
  
  dc2143e5
Dec 01, 2021
- Update README.md · 5d3c47bc
  Robert Bossy authored 3 years ago
  
  5d3c47bc
Oct 22, 2021
- saturate strain names · a6af11ee
  Robert Bossy authored 3 years ago
  
  a6af11ee
- fixed dictionary compilation process · ea5c4917
  Robert Bossy authored 3 years ago
  
  ea5c4917
Oct 21, 2021
- added relevant MeSH terms · 5bfa8285
  Robert Bossy authored 3 years ago
  
  5bfa8285
- added dict compilation plan · 8bfc968b
  Robert Bossy authored 3 years ago
  
  8bfc968b
Oct 20, 2021
- moved microorganisms roots in a single file · 09133b4f
  Robert Bossy authored 3 years ago
  
  09133b4f
- BacDive taxon entries ids in the form `bd:` · 5deb245f
  Robert Bossy authored 3 years ago
  
  5deb245f
Sep 24, 2021
- reject ambiguous name categories · d2aabe1e
  Robert Bossy authored 3 years ago
  
  d2aabe1e
- rejected ambiguous forms · 7d1a6ba6
  Robert Bossy authored 3 years ago
  
  7d1a6ba6
Apr 20, 2021
- added trie serialization step · 0d6dd88b
  Robert Bossy authored 3 years ago
  
  0d6dd88b
- refactorred reject file · 1eb811b2
  Robert Bossy authored 3 years ago
  
  1eb811b2
Apr 16, 2021
- reject names that do not contain letters · cebf0ba2
  Robert Bossy authored 3 years ago
  
  cebf0ba2
- fixed rewrite snakefile top goal · 12bc018f
  Robert Bossy authored 3 years ago
  
  12bc018f
Apr 09, 2021
- generate taxid_ files · 1e5a9388
  Robert Bossy authored 3 years ago
  
  1e5a9388
Apr 07, 2021
- fixed bug some entries contain tab character, added check step · e24f2062
  Robert Bossy authored 3 years ago
  
  e24f2062
Apr 05, 2021
- update .gitignore · 3489bde1
  Robert Bossy authored 3 years ago
  
  3489bde1
- update README · 9b203cf7
  Robert Bossy authored 3 years ago
  
  9b203cf7
- snakefiles bug fixes · 89d61310
  Robert Bossy authored 3 years ago
  
  89d61310
- NCBI Taxonomy download snakefile · 1e8e026e
  Robert Bossy authored 3 years ago
  
  1e8e026e
- rewrite snakefile, microorganisms selection · 81a9aa77
  Robert Bossy authored 3 years ago
  
  81a9aa77
- force match in bacteria subdivision · 17a79ce0
  Robert Bossy authored 3 years ago
  
  17a79ce0
- simpler snakefiles · 099dbcbd
  Robert Bossy authored 3 years ago
  
  099dbcbd
Mar 31, 2021
- use DSMZ match result with rewrite-taxonomy · 415e6022
  Robert Bossy authored 4 years ago
  
  415e6022
- read directly dmp files, improved dispatch, fixed bugs · 53d3404d
  Robert Bossy authored 4 years ago
  
  53d3404d
- updated README.md · 8caab74c
  Robert Bossy authored 4 years ago
  
  8caab74c
- add dispatch no-number · 3d84f49b
  Robert Bossy authored 4 years ago
  
  3d84f49b
- completed readme · e6dff400
  Robert Bossy authored 4 years ago
  
  e6dff400
Feb 19, 2021
- Python script to replace AlvisNLP plan · 3ff12318
  Robert Bossy authored 4 years ago
  
  3ff12318
- try to fix everything (defunct method) · 58460964
  Robert Bossy authored 4 years ago
  
  58460964
Feb 17, 2021
- renamed strain form fields · 5600712d
  Robert Bossy authored 4 years ago
  
  5600712d
- fixed bad subspecies names · 965f0cfe
  Robert Bossy authored 4 years ago
  
  965f0cfe
- parametrized the master taxa+id file location · e6951eb1
  Robert Bossy authored 4 years ago
  
  e6951eb1
Feb 16, 2021
- legibility · 849d33e3
  Robert Bossy authored 4 years ago
  
  849d33e3
- renamed DSMZ match plan · 4334db9d
  Robert Bossy authored 4 years ago
  
  4334db9d
- cleaned DSMZ snakefiles · 1d2867bb
  Robert Bossy authored 4 years ago
  
  1d2867bb
- split DSMZ snakefiles · b2bca123
  Robert Bossy authored 4 years ago
  
  b2bca123
Feb 15, 2021
- simpler workflow, no need to query genera · f7d09c00
  Robert Bossy authored 4 years ago
  
  f7d09c00
- added all entries query · a1b296da
  Robert Bossy authored 4 years ago
  
  a1b296da

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