Commits · master · ORG.Asm / ORG.Annotate

28 Feb, 2022 2 commits
- Update README.md · 5df3ec47
  Bruno Bzeznik authored Feb 28, 2022
  
  5df3ec47
- Update README.md (repseek now into NIX) · 5473498b
  Bruno Bzeznik authored Feb 28, 2022
  
  5473498b
17 Feb, 2022 7 commits
- Take into account genes overlaping the circular junction · 7caa7686
  Eric Coissac authored Feb 17, 2022
  
  7caa7686
- some blast tricks · 9633c56d
  Eric Coissac authored Feb 17, 2022
  
  9633c56d
- new script for sumarizing features for easiest compairison · 348556d9
  Eric Coissac authored Feb 17, 2022
  
  348556d9
- Change the gitignore · 842d1e52
  Eric Coissac authored Feb 17, 2022
  
  842d1e52
- Change setup for the blast filtering before exonerate · 139685ec
  Eric Coissac authored Feb 17, 2022
  
  139685ec
- Change rRNA gene name to rra16s and so on... · e5e1209d
  Eric Coissac authored Feb 17, 2022
  
  e5e1209d
- Add dependency to GNU parallel · 78cb8874
  Eric Coissac authored Feb 17, 2022
  
  78cb8874
16 Feb, 2022 3 commits
- Gitignore · 6e295d4f
  Eric Coissac authored Feb 16, 2022
  
  6e295d4f
- Gitingor · 08c6b642
  Eric Coissac authored Feb 16, 2022
  
  08c6b642
- Switch to a swissprot based reference database for CDS annotation · 3da31ce8
  Eric Coissac authored Feb 16, 2022
  
  3da31ce8
14 Feb, 2022 6 commits
- Do correct renaming of RPS12 genes if several · 8ddbfaea
  Eric Coissac authored Feb 14, 2022
  
  8ddbfaea
- A script for helping in clustering reference database for CDS annotation · 7babc60d
  Eric Coissac authored Feb 14, 2022
  
  7babc60d
- Allows for specifying a start point for the locus tag numbering · cf32f0ed
  Eric Coissac authored Feb 14, 2022
  
  cf32f0ed
- Remove extra feature for CDS · 19b149eb
  Eric Coissac authored Feb 14, 2022
  
  19b149eb
- Merge branch 'master' of ssh://git.metabarcoding.org/org-asm/org-annotate · d8ef3a92
  Eric Coissac authored Feb 14, 2022
  
  d8ef3a92
- Adds detection of RPS12 and managment of locus tags · b9b17708
  Eric Coissac authored Feb 14, 2022
  
  b9b17708
08 Nov, 2021 3 commits
- Update README.md to list every nix packages corresponding to org.annot dependences · 12c47ebe
  Eric Coissac authored Nov 08, 2021
  
  12c47ebe
- Update README.txt name to `.md` · 9b7bbd04
  Eric Coissac authored Nov 08, 2021
  
  9b7bbd04
- Update README.txt to switch to Markdown format · 62b25584
  Eric Coissac authored Nov 08, 2021
  
  62b25584
05 Nov, 2021 2 commits
- Makes modification on the sequence header and feature source · 10e92164
  Eric Coissac authored Nov 05, 2021
  
  10e92164
- change tRNA and CDS annotations · 12b6c560
  Eric Coissac authored Nov 05, 2021
  
  12b6c560
04 Nov, 2021 5 commits
- Patch the name of rRNA genes · ba00e56f
  Eric Coissac authored Nov 04, 2021
  
  ba00e56f
- Adds changes to conform with EMBL template files · 93da2c4c
  Eric Coissac authored Nov 04, 2021
  
  93da2c4c
- Patch the detection algorithm (the overlap detection) · 7aca679a
  Eric Coissac authored Nov 04, 2021
  
  7aca679a
- Adds new options and call the new bash version of go_cds · 2489ee1f
  Eric Coissac authored Nov 04, 2021
  
  2489ee1f
- Switch the go_cds script from tcsh to bash · 36041f96
  Eric Coissac authored Nov 04, 2021
  
  36041f96
03 Nov, 2021 2 commits
- Small indentation change · 65aab588
  Eric Coissac authored Nov 03, 2021
  
  65aab588
- Adds the detection of the RPS12 gene (Gene with trans-splicing) · 2396df18
  Eric Coissac authored Nov 03, 2021
  
  2396df18
01 Jun, 2021 2 commits
- Adds options to allows to disconnect some detectors · bcaea43d
  Eric Coissac authored Jun 01, 2021
  
  bcaea43d
- Move the script used for clusterizing protein DBs · c27edd09
  Eric Coissac authored Jun 01, 2021
  
  c27edd09
05 Apr, 2019 1 commit
- add a -l option to set a minimum length on the contig to annotate · a16feefc
  Eric Coissac authored Apr 05, 2019
  
  a16feefc
20 Nov, 2018 4 commits
- Patch a bug leading to a double pseudogene tagging · 35e27b66
  Eric Coissac authored Nov 20, 2018
  
  35e27b66
- If proteins are looked for without stop adds an extra option · 318327af
  Eric Coissac authored Nov 20, 2018
```
PASS1_LOOK_FOR_PSEUDO allowing for searching with stop in a second time
(Pseudogene search).

The PASS1_ALLOW_STOP is set back to 0 and the new PASS1_LOOK_FOR_PSEUDO
is set to 1
```
  318327af
- Check the translation for stop codon and add a pseudogene qualifier if · 11b612fc
  Eric Coissac authored Nov 20, 2018
```
present.
```
  11b612fc
- Merge branch 'master' of ssh://git@git.metabarcoding.org/org-asm/org-annotate.git · 0eee2e07
  Eric Coissac authored Nov 20, 2018
  
  0eee2e07
11 May, 2018 3 commits
- Add .DS_Store to the .gitignore files · b92f4196
  Eric Coissac authored May 11, 2018
  
  b92f4196
- Add .DS_Store to the .gitignore files · a543c30e
  Eric Coissac authored May 11, 2018
  
  a543c30e
- Correct .gitignore files · 9d27bea3
  Eric Coissac authored May 11, 2018
  
  9d27bea3