Commits · c0f66042c88a5a8139917d08cde854dada6dbac6 · Laura Denies / PathoFact

18 Jun, 2020 2 commits
- adjusted ORFs ID translation · c0f66042
  Laura Denies authored Jun 18, 2020
  
  c0f66042
- Include MOB_suite for Plasmid prediction | modify MGE prediction · 01b6b60d
  Laura Denies authored Jun 18, 2020
  
  01b6b60d
17 Jun, 2020 1 commit
- Integrate RGI within AMR workflow · 223aa6a5
  Laura Denies authored Jun 17, 2020
  
  223aa6a5
12 Jun, 2020 1 commit
- update deepARG version and installation process · 7b3ea2ae
  Laura Denies authored Jun 12, 2020
  
  7b3ea2ae
11 Jun, 2020 1 commit
- add Prodigal and new split script · 5d05b9d0
  Laura Denies authored Jun 11, 2020
  
  5d05b9d0
09 Jun, 2020 1 commit
- adjusted the rules to include mem and runtime for cluster config: updated... · 6589efab
  Valentina Galata authored Jun 09, 2020 and Laura Denies committed Jun 09, 2020
```
adjusted the rules to include mem and runtime for cluster config: updated configs; added slurm config; added cluster scripts; other minor updates
```
  6589efab
30 Apr, 2020 1 commit
- escaping tabs in rule cmds properly (issue #32 ) · 0ba12560
  Valentina Galata authored Apr 30, 2020
  
  0ba12560
24 Apr, 2020 1 commit
- *.snk to *.smk (issue #18 ) · 0a7b2929
  Valentina Galata authored Apr 24, 2020
  
  0a7b2929
23 Apr, 2020 1 commit
- bug fix: wrong redirect into log file in rules/AMR/Plasmid.snk for filter.pl · 67c3ab83
  Valentina Galata authored Apr 23, 2020
  
  67c3ab83
21 Apr, 2020 4 commits
- added log files to snakemake rules and logging in Rscripts (issue #28 ) · e709e686
  Valentina Galata authored Apr 21, 2020
  
  e709e686
- rm configfile from all snakemake files except Snakefile (issue #25 ) · 9d5a1320
  Valentina Galata authored Apr 21, 2020
  
  9d5a1320
- added .snk extension to snakemake files in rules/ and workflows/ (issue #18 ) · e0939b4e
  Valentina Galata authored Apr 21, 2020
  
  e0939b4e
- format fix in rules/AMR (issue #26 ) · d0581e48
  Valentina Galata authored Apr 21, 2020
  
  d0581e48
20 Apr, 2020 4 commits
- adjusted paths to scripts in rules (issue #15 ) · 33756c49
  Valentina Galata authored Apr 20, 2020
  
  33756c49
- mv scripts in rules/ to scripts/ (issue #15 ) · ba3bf94b
  Valentina Galata authored Apr 20, 2020
  
  ba3bf94b
- adjusted paths to YAML files in rules (issue #14 ) · f2d5c20f
  Valentina Galata authored Apr 20, 2020
  
  f2d5c20f
- renamed AMR.yml to DeepARG.yaml (issue #14 ); updated gitignore and rm a *.swp file (issue #13 ) · 4c20e060
  Valentina Galata authored Apr 20, 2020
  
  4c20e060
17 Apr, 2020 1 commit
- Updated AMR_MGE.R · 1fe55556
  Laura Denies authored Apr 17, 2020
  
  1fe55556
24 Mar, 2020 1 commit
- Update AMR_MGE.R · 9689fc84
  Laura Denies authored Mar 24, 2020
  
  9689fc84
12 Feb, 2020 1 commit
- Update AMR_MGE.R · c33869cf
  Laura Denies authored Feb 12, 2020
  
  c33869cf
17 Jan, 2020 1 commit
- Initial commit · 70401ab2
  Laura Denies authored Jan 17, 2020
  
  70401ab2