Commits · master · ESB / ONT_pilot_gitlab · GitLab

09 Aug, 2021 1 commit
- added license · d6298885
  Valentina Galata authored Aug 09, 2021
  
  d6298885
23 Apr, 2021 1 commit
- figures: fix for mmseqs2 upsetr plots using cowplot (issue #127 ) · 6eb4eac9
  Valentina Galata authored Apr 23, 2021
  
  6eb4eac9
22 Apr, 2021 1 commit
- figures: updated fig scripts (and some func.s in utils.R) to optimize figs for... · 2c899e7f
  Valentina Galata authored Apr 22, 2021
```
figures: updated fig scripts (and some func.s in utils.R) to optimize figs for submission (issue #127)
```
  2c899e7f
21 Apr, 2021 4 commits
- notes: metap: added credentials for (raw) data access; updated readme for reprod. (issue #127 ) · 64ffc22d
  Valentina Galata authored Apr 21, 2021
  
  64ffc22d
- notes: metap: added ben's cmds; updated readme (issue #127 ) · 9c650220
  Valentina Galata authored Apr 21, 2021
  
  9c650220
- archive: incl ave. metat cov. for genes (GDB), updated readme (issue #128 ) · 02b4f793
  Valentina Galata authored Apr 21, 2021
  
  02b4f793
- workflow: utils.py: fixed a bug in ave_gene_cov (issue #128 ) · 8e6c31fc
  Valentina Galata authored Apr 21, 2021
  
  8e6c31fc
19 Apr, 2021 7 commits
- archive: script for code archive (for paper, issue #127 ) · 8821d03f
  Valentina Galata authored Apr 19, 2021
  
  8821d03f
- added conda env yaml for biopython (was removed by accident) · 3a04b60c
  Valentina Galata authored Apr 19, 2021
  
  3a04b60c
- readme/archive: rm large files from results archive · 24309570
  Valentina Galata authored Apr 19, 2021
  
  24309570
- readme: minor change in README_REPROD.md · 3fc1b86c
  Valentina Galata authored Apr 19, 2021
  
  3fc1b86c
- archive: scripts for results archive · 96cbb25c
  Valentina Galata authored Apr 19, 2021
  
  96cbb25c
- readme: minor change in README_ARCHIVE.md · de480bee
  Valentina Galata authored Apr 19, 2021
  
  de480bee
- readme: updated notes; added file for results archive · b3934134
  Valentina Galata authored Apr 19, 2021
  
  b3934134
15 Apr, 2021 3 commits
- notes: high conf prots: more stats · eeac8cad
  Valentina Galata authored Apr 15, 2021
  
  eeac8cad
- readme: updated (issue #127 ) · d0c44b5b
  Valentina Galata authored Apr 15, 2021
  
  d0c44b5b
- report: table and stats: assembly intersection and metat cov · eb8dc9d2
  Valentina Galata authored Apr 15, 2021
  
  eb8dc9d2
14 Apr, 2021 3 commits
- readme: updated readme; added readme for reproducing results (for pub) (issue #127 ) · 00ba04e1
  Valentina Galata authored Apr 14, 2021
  
  00ba04e1
- workflow: annottaion: hmm/kegg: db file not required if not set (issue #127 ) · 76d42320
  Valentina Galata authored Apr 14, 2021
  
  76d42320
- configs: removed not required steps (issue #127 ) · 9177187f
  Valentina Galata authored Apr 14, 2021
  
  9177187f
13 Apr, 2021 2 commits
- rm not relevant folders and files (issue #127 ) · e47143ef
  Valentina Galata authored Apr 13, 2021
  
  e47143ef
- updated readme (issue #127 ) · 90a677ba
  Valentina Galata authored Apr 13, 2021
  
  90a677ba
25 Mar, 2021 3 commits
- figures: diff layout for rgi figs · a860acc0
  Valentina Galata authored Mar 25, 2021
  
  a860acc0
- report: gdb: metap stats: rm dupl set(...) in collect_metap_prots in utils.py (issue #97 ) · 95485d2e
  Valentina Galata authored Mar 25, 2021
  
  95485d2e
- report: gdb: metap stats (issue #97 ) · 88dfe576
  Valentina Galata authored Mar 25, 2021
  
  88dfe576
19 Mar, 2021 3 commits
- figures/stats: print stats (for paper) when creating barrnap fig · c04449d4
  Valentina Galata authored Mar 19, 2021
  
  c04449d4
- figures: fixed type in kingdom names for barrnap fig.s (issue #125 ) · 6b85949e
  Valentina Galata authored Mar 19, 2021
  
  6b85949e
- figures/stats: print stats (for paper) when ceating prodigal fig · 7e5f3c1c
  Valentina Galata authored Mar 19, 2021
  
  7e5f3c1c
12 Mar, 2021 4 commits
- notes: updated rrna notes in gdb_barrnap_metat.md (issue #124 ) · 3ace90aa
  Valentina Galata authored Mar 12, 2021
  
  3ace90aa
- notes: gdb_rgi_aro3004454_flye.md: rm one line which was from previous version (issue #124 ) · 1d6efd3f
  Valentina Galata authored Mar 12, 2021
  
  1d6efd3f
- readme update · 3de3af71
  Valentina Galata authored Mar 12, 2021
  
  3de3af71
- figures: minor change in rgi figures - letters for subplots · ce9cefe6
  Valentina Galata authored Mar 12, 2021
  
  ce9cefe6
10 Mar, 2021 7 commits
- notes: updated rgi/card other notes (issue #124 ) · 91194587
  Valentina Galata authored Mar 10, 2021
  
  91194587
- notes/figures: updated rgi/card example for gdb/flye (issue #124 ) · f0ae27df
  Valentina Galata authored Mar 10, 2021
  
  f0ae27df
- notes: updated gdb_mmseqs2_uniq_metat.md (issue #124 ) · 807358cf
  Valentina Galata authored Mar 10, 2021
  
  807358cf
- config: minor change in report shell script · 1c0678d6
  Valentina Galata authored Mar 10, 2021
  
  1c0678d6
- config: rumen: changed work dir path (output was moved from SB's to VG's scratch) · 6dc9d206
  Valentina Galata authored Mar 10, 2021
  
  6dc9d206
- config: gdb: increased runtime for analysis_mash_sketch_lr · f5f5662f
  Valentina Galata authored Mar 10, 2021
  
  f5f5662f
- config: unified sbatch scripts, snakemake's conda env path as arg · cdfe3e7e
  Valentina Galata authored Mar 10, 2021
  
  cdfe3e7e
08 Mar, 2021 1 commit
- preprocessing: changed qin/qout params in rm_host_bbmap_lr_metag (issue #124 ) · 9b637e54
  Valentina Galata authored Mar 08, 2021
  
  9b637e54