Commits · nextseq_fix · IMP / IMP3 · GitLab

13 Apr, 2021 1 commit
- trimming nextseq with min length · 387ae20c
  heintzbu authored Apr 13, 2021
  
  387ae20c
20 Dec, 2020 2 commits
- config: new merge assembly parameter · 9672c874
  Patrick May authored Dec 20, 2020
  
  9672c874
- Merge branch 'rm_environ' into 'master' · 6c63da85
  Anna Buschart authored Dec 20, 2020
```
Do not use global env vars (issue #20)

See merge request !2
```
  6c63da85
15 Dec, 2020 1 commit
- do not use global env vars (issue #20 ) · 2abf4064
  Valentina Galata authored Dec 15, 2020
  
  2abf4064
30 Nov, 2020 1 commit
- Merge branch 'master' of https://git-r3lab.uni.lu/IMP/imp3 · d53b4f3f
  Patrick May authored Nov 30, 2020
  
  d53b4f3f
29 Nov, 2020 1 commit
- binny update · 7871b5a0
  Patrick May authored Nov 29, 2020
  
  7871b5a0
27 Nov, 2020 2 commits
- Update summarize_all_stats.R - fix error that leads to missing bins in overview · 43200d63
  Anna Buschart authored Nov 27, 2020
  
  43200d63
- envs updated · 1894132d
  Patrick May authored Nov 27, 2020
  
  1894132d
23 Nov, 2020 1 commit
- new config.yaml updated for long etc. · c788cc7b
  Patrick May authored Nov 23, 2020
  
  c788cc7b
19 Nov, 2020 1 commit
- assembly merging (w/ flye): rm --by-name from seqkit cmd to match id only [ci skip] · 01f363f6
  Valentina Galata authored Nov 19, 2020
  
  01f363f6
06 Nov, 2020 2 commits
- fixed a typo in merge-hybrid-assembly.smk (issue #11 ) [ci skip] · b758037b
  Valentina Galata authored Nov 06, 2020
  
  b758037b
- added basic snakemake conda yaml (issue #10 ) [ci skip] · c19070c2
  Valentina Galata authored Nov 06, 2020
  
  c19070c2
05 Nov, 2020 1 commit
- assembly merging: fixed line width for seqkit (flye option) (issue #11 ) [ci skip] · 6fe51840
  Valentina Galata authored Nov 05, 2020
  
  6fe51840
04 Nov, 2020 3 commits
- updated imp config: merge: set default and updated comment [ci skip] · 398fa340
  Valentina Galata authored Nov 04, 2020
  
  398fa340
- updated launch script (issue #17 ) [ci skip] · 4d4a8fbd
  Valentina Galata authored Nov 04, 2020
  
  4d4a8fbd
- assembly: bug fix in merging rules (issue #11 ,#14 ) [ci skip] · 98af3a8e
  Valentina Galata authored Nov 04, 2020
  
  98af3a8e
30 Oct, 2020 5 commits
- assembly: minor changes in asm merging rules (issue #11 ,#14 ) (NOT tested) [ci skip] · 26781c66
  Valentina Galata authored Oct 30, 2020
  
  26781c66
- assembly: added merge options (issue #11 ,#14 ) (NOT tested) [ci skip] · f7948d1a
  Valentina Galata authored Oct 30, 2020
  
  f7948d1a
- added a launch script (issue #17 ) · b534fcaf
  Valentina Galata authored Oct 30, 2020
  
  b534fcaf
- updated slurm config (issue #16 ); decreased time for concat rule in hybrid/metaspades.smk · 4e439f26
  Valentina Galata authored Oct 30, 2020
  
  4e439f26
- preprocessing: commented out unused code (issue #7 ) · 0e5cf064
  Valentina Galata authored Oct 30, 2020
  
  0e5cf064
12 Oct, 2020 2 commits
- assembly: merging: rm log for the skip-merging-rule (issue #14 ) [ci skip] · a531918a
  Valentina Galata authored Oct 12, 2020
  
  a531918a
- assembly: merging: rm flye (issue #11 , #13 ); added flag for merging (issue #14 ) [ci skip] · 94a64201
  Valentina Galata authored Oct 12, 2020
  
  94a64201
30 Sep, 2020 2 commits
- added threads to trimming rules [ci skip] · c2395cca
  Valentina Galata authored Sep 30, 2020
  
  c2395cca
- reverted commit c273d340 (issue #4 ) [ci skip] · 63e569dc
  Valentina Galata authored Sep 30, 2020
  
  63e569dc
29 Sep, 2020 2 commits
- updated flye rules: rm genome size param (not required in new version) · 3cb052bc
  Valentina Galata authored Sep 29, 2020
  
  3cb052bc
- updated flye version in IMP_assembly.yaml · 5e09368b
  Valentina Galata authored Sep 29, 2020
  
  5e09368b
10 Sep, 2020 1 commit
- updated IMP_assembly.yaml: fixed name; added cap3, spades and bzip2 back [ci skip] · fa1d69f3
  Valentina Galata authored Sep 10, 2020
  
  fa1d69f3
31 Aug, 2020 1 commit
- New Binny version · a2da0a33
  Patrick May authored Aug 31, 2020
  
  a2da0a33
11 Aug, 2020 1 commit
- increased runtime for flye rules · 55899a13
  Valentina Galata authored Aug 11, 2020
  
  55899a13
04 Aug, 2020 1 commit
- issue #11 : updated slurm.config.yaml · c6428646
  Valentina Galata authored Aug 04, 2020
  
  c6428646
31 Jul, 2020 1 commit
- issue #11 : added flye to merge assemblies (rules, config param, conda yaml) · ac88ccb9
  Valentina Galata authored Jul 31, 2020
  
  ac88ccb9
17 Jul, 2020 4 commits
- added threads for nextseq trimming rule in trimming(_SE).smk [ci skip] · 419003e7
  Valentina Galata authored Jul 17, 2020
  
  419003e7
- fixed a typo in trimming(_SE).smk: 'trimmoed' [ci skip] · c273d340
  Valentina Galata authored Jul 17, 2020
  
  c273d340
- issue #7 : replaced gzip by pigz in preprocessing rules [ci skip] · 88b961ca
  Valentina Galata authored Jul 17, 2020
  
  88b961ca
- issue #7: prepare input: localrules for touch/symlinks; pigz/bzip2 for... · 5e49df3c
  Valentina Galata authored Jul 17, 2020
```
issue #7: prepare input: localrules for touch/symlinks; pigz/bzip2 for decompression (issue #7) [ci skip]
```
  5e49df3c
16 Jul, 2020 1 commit
- bug fix in slurm config (issue #8 ): wrong keyword for qos · 2f70e062
  Valentina Galata authored Jul 16, 2020
  
  2f70e062
01 Jul, 2020 3 commits
- Merge branch 'master' of https://git-r3lab.uni.lu/IMP/imp3 into IMPiris · 6f1badf7
  Patrick May authored Jul 01, 2020
  
  6f1badf7
- touch files · 5fc78d36
  Patrick May authored Jul 01, 2020
  
  5fc78d36
- synch with IMPiris · d03ae5c2
  heintzbu authored Jul 01, 2020
  
  d03ae5c2