Commits · 22c1b7ba49bd3365d5feba2c72f40855463892f9 · ESB / ONT_pilot_gitlab

Nov 13, 2020
- config: mv sub-folders: lowcase sample names · 22c1b7ba
  Valentina Galata authored 4 years ago
  
  22c1b7ba
- init: added localrule for linking files · d9ff5696
  Valentina Galata authored 4 years ago
  
  d9ff5696
Nov 12, 2020
- config: major update · c0b0ba64
  Valentina Galata authored 4 years ago
  
  c0b0ba64
Nov 11, 2020
- config: rm gis20 · 23bf58a1
  Valentina Galata authored 4 years ago
  
  23bf58a1
- config: added rumen (fast5) · 38005e65
  Valentina Galata authored 4 years ago
  
  38005e65
Nov 09, 2020
- workflow: raw data download (issue #102 ) · 7b93a40e
  Valentina Galata authored 4 years ago
  
  7b93a40e
- config: rm ganges · f2abca55
  Valentina Galata authored 4 years ago
  
  f2abca55
Nov 05, 2020
- config: updated zymo, gdb and nwc · d988107b
  Valentina Galata authored 4 years ago
  
  d988107b
Nov 03, 2020
- config: updated GDB and Zymo · 778fc6a9
  Valentina Galata authored 4 years ago
  
  778fc6a9
- config: updated NWC (issue #88 ) · f54b9e60
  Valentina Galata authored 4 years ago
  
  f54b9e60
- dataset NWC: added configs (issue #88 ) · 64033608
  Valentina Galata authored 4 years ago
  
  64033608
Oct 28, 2020
- config: updated slurm configs and sbatch scripts for GDB and Zymo (issue #100 ) · 97df27a6
  Valentina Galata authored 4 years ago
  
  97df27a6
Oct 16, 2020
- config: GDB update · 2e0757aa
  Valentina Galata authored 4 years ago
  
  2e0757aa
Oct 15, 2020
- config: updated GDB · 6867908f
  Valentina Galata authored 4 years ago
  
  6867908f
Oct 07, 2020
- updated GDB config files (issue #54 ) · 3370f1b8
  Valentina Galata authored 4 years ago
  
  3370f1b8
Aug 21, 2020
- updated readme; configs: updated conda env path in all sbatch.sh files · cf5125be
  Valentina Galata authored 4 years ago
  
  cf5125be
- configs: sbatch.sh: run snakemake only if conda env activation has worked · 34ac0857
  Valentina Galata authored 4 years ago
  
  34ac0857
- Update sbatch.sh · 38268814
  Susheel Busi authored 4 years ago
  
  38268814
Aug 20, 2020
- Zymo/GSI20 configs: replaced main conda env path · 4ac143ff
  Valentina Galata authored 4 years ago
  
  4ac143ff
Aug 19, 2020
- GIS20/Zymo configs: fixed a typo · 6fa78459
  Valentina Galata authored 4 years ago
  
  6fa78459
- updated configs · db86679c
  Valentina Galata authored 4 years ago
  
  db86679c
- polishing update: changed polishing strategy, updated racon conda yaml to... · 1ffcfe82
  Valentina Galata authored 4 years ago
  
  polishing update: changed polishing strategy, updated racon conda yaml to replace bwa conda yaml (issue #81)
  1ffcfe82
Aug 18, 2020
- updated GDB config: added mapping back to the steps · e71b9507
  Valentina Galata authored 4 years ago
  
  e71b9507
Aug 17, 2020
- GIS20/Zymo config: sortmerna/bbmap update · 3df1c26a
  Valentina Galata authored 4 years ago
  
  3df1c26a
- GDB config: sortmerna/bbmap update · 7c16689b
  Valentina Galata authored 4 years ago
  
  7c16689b
- GDB config (slurm): rule mapping_bwa_mem_assembly_hyhy · e3eae03c
  Valentina Galata authored 4 years ago
  
  e3eae03c
- GIS20 configs: updated · 992a11c4
  Valentina Galata authored 4 years ago
  
  992a11c4
- zymo configs: updated · 14c69148
  Valentina Galata authored 4 years ago
  
  14c69148
Aug 16, 2020
- GDB config: sormerna update · 88debfb8
  Valentina Galata authored 4 years ago
  
  88debfb8
- GDB config: sormerna cores and runtime, other minor changes · 7bca601e
  Valentina Galata authored 4 years ago
  
  7bca601e
- GDB config: more cores and time for sortmerna · 3a42ed49
  Valentina Galata authored 4 years ago
  
  3a42ed49
Aug 14, 2020
- updated GDB config files · 48aa5933
  Valentina Galata authored 4 years ago
  
  48aa5933
Aug 13, 2020
- updated GDB config files · ae3b5884
  Valentina Galata authored 4 years ago
  
  ae3b5884
Aug 03, 2020
- updated GDB config files · 689e112b
  Valentina Galata authored 4 years ago
  
  689e112b
Jul 31, 2020
- update of GIS20 config (changes made back then to re-run) · 0f2fd1e5
  Valentina Galata authored 4 years ago
  
  0f2fd1e5
- issue #74 (config validation); updated GDB config · bc0803ca
  Valentina Galata authored 4 years ago
  
  bc0803ca
Jul 24, 2020
- updated GDB configs · a07275a8
  Valentina Galata authored 4 years ago
  
  a07275a8
- tax step: added kaiju (cdhit, issue #67 ), minor changes for kraken2 rules,... · 726b11a8
  Valentina Galata authored 4 years ago
  
  tax step: added kaiju (cdhit, issue #67), minor changes for kraken2 rules, updated Snakefile and GDB configs
  726b11a8
- updated GDB slurm.config · 67b2a546
  Valentina Galata authored 4 years ago
  
  67b2a546
Jul 23, 2020
- updated GDB contig files · cb0e17b2
  Valentina Galata authored 4 years ago
  
  cb0e17b2