Commits · de0ac1b85ecacfd87099469fe92c2eec23f8ae76 · LBMC / Hub / hic

Sep 16, 2024
- update benchmark/plot.r and add plot_contact.r · de0ac1b8
  Laurent Modolo authored 6 months ago
  
  de0ac1b8
Jul 26, 2024
- Merge branch 'master' of gitbio.ens-lyon.fr:LBMC/hub/hic · 9d2d7f76
  Laurent Modolo authored 7 months ago
  
  9d2d7f76
- change default option for hicstuff bowtie2 mapping end to end · 97e9f94c
  Laurent Modolo authored 7 months ago
  
  97e9f94c
Jul 25, 2024
- add script to run benchmark · 3970e25b
  Laurent Modolo authored 7 months ago
  
  3970e25b
- add default value for parasplit · 2d684ede
  Laurent Modolo authored 7 months ago
  
  2d684ede
Jul 22, 2024
- parasplit: fix parameters duplication · 89474c57
  Laurent Modolo authored 8 months ago
  
  89474c57
- parasplit: fix fastq.gz extention · 8ead2e48
  Laurent Modolo authored 8 months ago
  
  8ead2e48
- parasplit: add version and fix fastq.gz extention · 44747b38
  Laurent Modolo authored 8 months ago
  
  44747b38
- parasplit: change mode from all to rf · 597b7478
  Laurent Modolo authored 8 months ago
  
  597b7478
Jul 19, 2024
- decrease max memory from 128 to 64 · 302846b2
  Laurent Modolo authored 8 months ago
  
  302846b2
- update parasplit to 1.1.2 · 4a475dbc
  Laurent Modolo authored 8 months ago
  
  4a475dbc
- update parasplit to 1.0.4 · 5497b267
  Laurent Modolo authored 8 months ago
  
  5497b267
Jul 17, 2024
- update parasplit to 1.0.2 · 881d9eee
  Laurent Modolo authored 8 months ago
  
  881d9eee
- add fix for docker permission · 31e474ac
  Laurent Modolo authored 8 months ago
  
  31e474ac
Jul 15, 2024
- update errorStrategy · b8fd0ea5
  Laurent Modolo authored 8 months ago
  
  b8fd0ea5
- conf/base.config: degreasse max memory for high process · 221f3e3b
  Laurent Modolo authored 8 months ago
  
  221f3e3b
- add option to use paraplit instead of cutsite · 5bbf9ae4
  Laurent Modolo authored 8 months ago
  
  5bbf9ae4
Jul 03, 2024
- remove duplicate fields for execution trace · 904337d1
  Mia Croiset authored 8 months ago
  
  904337d1
- correct schema again · 696578e4
  Mia Croiset authored 8 months ago
  
  696578e4
- correct schema for readme · aaa4f91a
  Mia Croiset authored 8 months ago
  
  aaa4f91a
- comment script · 09826a09
  Mia Croiset authored 8 months ago
  
  09826a09
Jul 02, 2024
- ignore benchmark txt files · 71005133
  Mia Croiset authored 8 months ago
  
  71005133
- add cumsum plot + nm contacts plot · 0d8c6e56
  Mia Croiset authored 8 months ago
  
  0d8c6e56
Jun 25, 2024
- add replicas to plot · 810d4268
  Mia Croiset authored 8 months ago
  
  810d4268
Jun 24, 2024
- order process by category and pipeline order · 5dd5017c
  Mia Croiset authored 8 months ago
  
  5dd5017c
Jun 20, 2024
- add saving plot in file · 96eb4d6e
  Mia Croiset authored 9 months ago
  
  96eb4d6e
- plot with realtime · 38a69aef
  Mia Croiset authored 9 months ago
  
  38a69aef
- plot per condition, process in x time in y · bbac091b
  Mia Croiset authored 9 months ago
  
  bbac091b
Jun 17, 2024
- read all trace files and plot benchmark (to clean) · 098c0efe
  Mia Croiset authored 9 months ago
  
  098c0efe
Jun 04, 2024
- add more fields to execution trace · dcc53642
  Mia Croiset authored 9 months ago
  
  dcc53642
May 29, 2024
- fix typo filter hicstuff · e5a65044
  Mia Croiset authored 9 months ago
  
  e5a65044
May 22, 2024
- clean functions to call hicstuff functions · d520fcd0
  Mia Croiset authored 10 months ago
  
  d520fcd0
- update build matrices function + delete manual sorting · 49ad90d5
  Mia Croiset authored 10 months ago
  
  49ad90d5
May 21, 2024
- add the pairtools command to output final pairs file · bf23c27b
  Mia Croiset authored 10 months ago
  
  bf23c27b
- use hicstuff repo for hicstuff functions · ea672538
  Mia Croiset authored 10 months ago
  
  ea672538
May 17, 2024
- add Dockerfile to get up to date hicstuff docker image · 4d8cff4a
  Mia Croiset authored 10 months ago
  
  4d8cff4a
- add hicstuff as git submodule · 5daab003
  Mia Croiset authored 10 months ago
  
  5daab003
Apr 04, 2024
- change errorStrategy · 53979e39
  Mia Croiset authored 11 months ago
  
  53979e39
Mar 27, 2024
- fix argument name for filter_pcr and cutsite_seed default value · bc97d581
  Mia Croiset authored 11 months ago
  
  bc97d581
Mar 21, 2024
- add hicstuff report stats · a71a5bd8
  Mia Croiset authored 1 year ago
  
  a71a5bd8