Commits · a2b69920f05eb19cf72b46e5bde2c4950e449add · ESB / ONT_pilot_gitlab · GitLab

24 Nov, 2020 2 commits
- report: minor updates (excl canu, incl raven; minor changes) · a2b69920
  Valentina Galata authored Nov 24, 2020
  
  a2b69920
- assembly: added lr assembler raven (issue #72 ) · d504bb12
  Valentina Galata authored Nov 24, 2020
  
  d504bb12
19 Nov, 2020 2 commits
- workflow_fast5: fix to skip multifast5 step if folder exists (config:... · b18aa06e
  Valentina Galata authored Nov 19, 2020
```
workflow_fast5: fix to skip multifast5 step if folder exists (config: single_fast5_dir is an empty str)
```
  b18aa06e
- report: updated report code (NOT finished) · b963794d
  Valentina Galata authored Nov 19, 2020
  
  b963794d
18 Nov, 2020 2 commits
- report: updated report code (NOT finished) · 10ffad74
  Valentina Galata authored Nov 18, 2020
  
  10ffad74
- report: next update (NOT finished) · d22c2894
  Valentina Galata authored Nov 18, 2020
  
  d22c2894
17 Nov, 2020 2 commits
- report: rm unsued conda yaml · f02a4da6
  Valentina Galata authored Nov 17, 2020
  
  f02a4da6
- report: updated report code (NOT finished) · 9f73aaae
  Valentina Galata authored Nov 17, 2020
  
  9f73aaae
16 Nov, 2020 4 commits
- config: updated nwc · 832868b4
  Valentina Galata authored Nov 16, 2020
  
  832868b4
- updated gitignore · b744d70d
  Valentina Galata authored Nov 16, 2020
  
  b744d70d
- analysis: contig cov segmentation w/ segclust2d (issue #107 ) · dd9c4808
  Valentina Galata authored Nov 16, 2020
  
  dd9c4808
- conda: YAML for segclust2d (issue #107 ) · 6b271249
  Valentina Galata authored Nov 16, 2020
  
  6b271249
13 Nov, 2020 12 commits
- config: updates for gdb/zymo/nwc (others - NOT done yet) · 7e3b1cd4
  Valentina Galata authored Nov 13, 2020
  
  7e3b1cd4
- analysis: minor changes (renamed some rules and log files) · b8c24478
  Valentina Galata authored Nov 13, 2020
  
  b8c24478
- annotation: fixed a bug in rgi cmd (issue #106 ) · f481e0f9
  Valentina Galata authored Nov 13, 2020
  
  f481e0f9
- preproc: fixed a bug when linking to SR files · 2245d9e2
  Valentina Galata authored Nov 13, 2020
  
  2245d9e2
- config: mv sub-folders: lowcase sample names · 22c1b7ba
  Valentina Galata authored Nov 13, 2020
  
  22c1b7ba
- tax: added prefix to log file names · da288033
  Valentina Galata authored Nov 13, 2020
  
  da288033
- preproc: fixed a bug in linking LR file, local rules · 2a66ed84
  Valentina Galata authored Nov 13, 2020
  
  2a66ed84
- init: added localrule for linking files · d9ff5696
  Valentina Galata authored Nov 13, 2020
  
  d9ff5696
- assembly: operams cmd update (keep clustering) (issue #104 ) · 304f1933
  Valentina Galata authored Nov 13, 2020
  
  304f1933
- assembly: operams cmd update (issue #104 ), metaspadeshybrid - scaffolds as output (issue #105 ) · 481381f6
  Valentina Galata authored Nov 13, 2020
  
  481381f6
- reprocessing: rm realpath when linking · f4bd2fd6
  Valentina Galata authored Nov 13, 2020
  
  f4bd2fd6
- conda: updated snakemake YAML (requirements) · 517b38bf
  Valentina Galata authored Nov 13, 2020
  
  517b38bf
12 Nov, 2020 1 commit
- config: major update · c0b0ba64
  Valentina Galata authored Nov 12, 2020
  
  c0b0ba64
11 Nov, 2020 3 commits
- config: rm gis20 · 23bf58a1
  Valentina Galata authored Nov 11, 2020
  
  23bf58a1
- config: added rumen (fast5) · 38005e65
  Valentina Galata authored Nov 11, 2020
  
  38005e65
- conda: bbmap: added missing '=' between name and version · 140299b9
  Valentina Galata authored Nov 11, 2020
  
  140299b9
10 Nov, 2020 7 commits
- analysis/taxonomy: fixed a bug: proc LR/SR for mash and kraken2 · c4c88b36
  Valentina Galata authored Nov 10, 2020
  
  c4c88b36
- mapping: fixed a bug: proc LR instead of raw ones for mapping · 041556ee
  Valentina Galata authored Nov 10, 2020
  
  041556ee
- fast5/preproc: mv basecalling to fast5 workflow (issue #103 ) · cc4965ba
  Valentina Galata authored Nov 10, 2020
  
  cc4965ba
- fast5/preproc: mv basecalling to fast5 workflow (issue #103 ) · cb1f8e9b
  Valentina Galata authored Nov 10, 2020
  
  cb1f8e9b
- analysis: mv gene cov from mapping to analysis · 95353429
  Valentina Galata authored Nov 10, 2020
  
  95353429
- assembly: replaced realpath when linking · 4039e29c
  Valentina Galata authored Nov 10, 2020
  
  4039e29c
- conda: simplified requirements · 5b1c69d9
  Valentina Galata authored Nov 10, 2020
  
  5b1c69d9
09 Nov, 2020 2 commits
- workflow: raw data download (issue #102 ) · 7b93a40e
  Valentina Galata authored Nov 09, 2020
  
  7b93a40e
- config: rm ganges · f2abca55
  Valentina Galata authored Nov 09, 2020
  
  f2abca55
05 Nov, 2020 2 commits
- conda: updated ont_fast5_api.yaml · 2d3073a3
  Valentina Galata authored Nov 05, 2020
  
  2d3073a3
- config: updated zymo, gdb and nwc · d988107b
  Valentina Galata authored Nov 05, 2020
  
  d988107b
03 Nov, 2020 1 commit
- config: updated GDB and Zymo · 778fc6a9
  Valentina Galata authored Nov 03, 2020
  
  778fc6a9