Commits · master · abyss-project / abyss-pipeline

07 Apr, 2021 3 commits
- Update README.md: remove deprecated info, mention abyss-rename and frogs_only,... · 4ab87ec6
  BRANDT authored Apr 07, 2021
```
Update README.md: remove deprecated info, mention abyss-rename and frogs_only, better explain parameters 
```
  4ab87ec6
- Update README.md, remove useless info, mention abyss-rename, better explain parameters · 67f4bf42
  BRANDT authored Apr 07, 2021
  
  67f4bf42
- Update README.md after last commit from Laure Quintric: mention abyss-rename... · 3e962214
  BRANDT authored Apr 07, 2021
```
Update README.md after last commit from Laure Quintric: mention abyss-rename for renaming sequence files, remove deprecated info.
```
  3e962214
11 May, 2020 1 commit
- add pdf workflow task descriptions · ced72c60
  Laure QUINTRIC authored May 11, 2020
  
  ced72c60
07 May, 2020 1 commit
- config files · e6551723
  Laure QUINTRIC authored May 07, 2020
  
  e6551723
05 May, 2020 1 commit
- make tests on several scenarii · d19b61da
  Laure QUINTRIC authored May 05, 2020
  
  d19b61da
04 May, 2020 5 commits
- Pulled down update to abyss-preprocessing · e1ea8f2b
  Laure QUINTRIC authored May 04, 2020
  
  e1ea8f2b
- last version · 83c17a8e
  Laure QUINTRIC authored May 04, 2020
  
  83c17a8e
- tests on 18S-V9 genoscope ligation data + dada2 · 95e97df1
  Laure QUINTRIC authored May 04, 2020
  
  95e97df1
- can handle R1R2 and genoscope style ligation data · ae529b5d
  Laure QUINTRIC authored May 04, 2020
  
  ae529b5d
- update submodule · 3bcba67f
  Laure QUINTRIC authored May 04, 2020
  
  3bcba67f
07 Feb, 2020 1 commit
- frogs_only process now available · d2459560
  Laure QUINTRIC authored Feb 07, 2020
  
  d2459560
17 Jan, 2020 4 commits
- remove monconfig.sh · f6474774
  Laure QUINTRIC authored Jan 17, 2020
  
  f6474774
- Updated submodule · fc70adaf
  Laure QUINTRIC authored Jan 17, 2020
  
  fc70adaf
- Pulled down update to submodule_dir · 7f6eae04
  Laure QUINTRIC authored Jan 17, 2020
  
  7f6eae04
- change trim and rename variable name for compatibility with preprocessing step · f98d557d
  Laure QUINTRIC authored Jan 17, 2020
  
  f98d557d
16 Jan, 2020 2 commits
- add export in front of output_merge variable · 21903654
  Laure QUINTRIC authored Jan 16, 2020
  
  21903654
- remove one condition to prevent to run frogs two times when running... · 5fa15731
  Laure QUINTRIC authored Jan 16, 2020
```
remove one condition to prevent to run frogs two times when running dada2mergeasv_process then frogs
```
  5fa15731
14 Jan, 2020 1 commit
- add option --minimum-length=2 to cutadapt command to prevent readlength = 0 · 328a2b0c
  Laure QUINTRIC authored Jan 14, 2020
  
  328a2b0c
13 Jan, 2020 1 commit
- add space in if directive · db739694
  Laure QUINTRIC authored Jan 13, 2020
  
  db739694
10 Jan, 2020 1 commit
- if ligation=no, dada=yes and frogs, input dir=dada_dir · 88c0412f
  Laure QUINTRIC authored Jan 10, 2020
  
  88c0412f
05 Dec, 2019 1 commit
- change dada asv table name according to R1 and R2 format · 94b82284
  Laure QUINTRIC authored Dec 05, 2019
  
  94b82284
04 Dec, 2019 1 commit
- modify main and config to fit several R1 R2 format · a9a7b5bf
  Laure QUINTRIC authored Dec 04, 2019
  
  a9a7b5bf
25 Nov, 2019 2 commits
- update submodule abyss preprocessing for rename only step · 63afffa7
  Laure QUINTRIC authored Nov 25, 2019
  
  63afffa7
- add frogs alone, frogs after dada2, frogs from tar · 622e45fc
  Laure QUINTRIC authored Nov 25, 2019
  
  622e45fc
22 Nov, 2019 1 commit
- add trimreads and rename options for preprocessing · 2017adeb
  Laure QUINTRIC authored Nov 22, 2019
  
  2017adeb
15 Nov, 2019 4 commits
- modify output filename of renormalisation process · 17e90194
  Miriam BRANDT authored Nov 15, 2019
  
  17e90194
- update of readme for double PCR preprocess and add references · 83e318c8
  Miriam BRANDT authored Nov 15, 2019
  
  83e318c8
- update of readme for double PCR preprocess and add references · 6d10b3d0
  Miriam BRANDT authored Nov 15, 2019
  
  6d10b3d0
- Fixed merge conflicts · 4924f5c8
  Miriam BRANDT authored Nov 15, 2019
  
  4924f5c8
14 Nov, 2019 2 commits
- modifications based on reviews of Mol. Eco. Ress · e945f331
  Miriam BRANDT authored Nov 14, 2019
  
  e945f331
- add R1name and R2name note · 5973bc02
  Laure QUINTRIC authored Nov 14, 2019
  
  5973bc02
05 Aug, 2019 8 commits
- move abyss-preprocessing to tag version v1.0.3 · c54fc8a3
  Laure QUINTRIC authored Aug 05, 2019
  
  c54fc8a3
- modify lulu_final.R reference to lulu.R · 08a3e426
  Laure QUINTRIC authored Aug 05, 2019
  
  08a3e426
- Merge branch 'master' of https://gitlab.ifremer.fr/abyss-project/abyss-pipeline · b1c602ab
  Laure QUINTRIC authored Aug 05, 2019
  
  b1c602ab
- remove lulu_final.R and replace by lulu.R · 7cdf50db
  Laure QUINTRIC authored Aug 05, 2019
  
  7cdf50db
- Integrate Miriam modifications · 5c3c2cc4
  QUINTRIC authored Aug 05, 2019
  
  5c3c2cc4
- Integrate Miriam modifications from merge request. · 68e37e81
  QUINTRIC authored Aug 05, 2019
  
  68e37e81
- last modifications from Miriam for publication and tag version · 5be216ca
  Laure QUINTRIC authored Aug 05, 2019
  
  5be216ca
- last modifications from Miriam for publication and tag version · 4c4d3b28
  Laure QUINTRIC authored Aug 05, 2019
  
  4c4d3b28