Commits · master · LBMC / Bernard / quantitative nucleosome analysis · GitLab

20 Jan, 2022 1 commit
- merge: import new ratio normalization · 295ce7f5
  Laurent Modolo authored Jan 20, 2022
  
  295ce7f5
07 Jan, 2022 1 commit
- restore deletec pipeline during merge with fact_condencine · 086dcbff
  Laurent Modolo authored Jan 07, 2022
  
  086dcbff
05 Jan, 2022 2 commits
- Merge branch 'master' of gitbio.ens-lyon.fr:LBMC/Bernard/fact_condensin · dfd7bfc0
  Laurent Modolo authored Jan 05, 2022
  
  dfd7bfc0
- chip_quant_analysis.nf: fix module for single-end analysis · bf01074a
  Laurent Modolo authored Jan 05, 2022
  
  bf01074a
17 Dec, 2021 1 commit
- mapping.nf: deport rm_from_genome to coverage_anaysis.nf · 09e39b8f
  Laurent Modolo authored Dec 17, 2021
  
  09e39b8f
16 Dec, 2021 3 commits
- Merge branch 'master' of gitbio.ens-lyon.fr:LBMC/Bernard/fact_condensin · 8112441f
  Laurent Modolo authored Dec 16, 2021
  
  8112441f
- chip_quant_analysis.nf: add bam_output parameters and fix bug for empty bam to bw conversion · 94fa49b3
  Laurent Modolo authored Dec 16, 2021
  
  94fa49b3
- matagen.R: add gamm cmd · fd5c6cd1
  Laurent Modolo authored Dec 16, 2021
  
  fd5c6cd1
07 Dec, 2021 2 commits
- metagen.R: add gam analysis for ratio data · 714d3b2a
  Laurent Modolo authored Dec 07, 2021
  
  714d3b2a
- metagen.R: add gam analysis · 9d2759d3
  Laurent Modolo authored Dec 07, 2021
  
  9d2759d3
06 Dec, 2021 1 commit
- README.md: update nf command to add rsync to Xnfs · 125e7165
  Laurent Modolo authored Dec 06, 2021
  
  125e7165
26 Nov, 2021 1 commit
- normalization.R: update WCE normalization · 962ba1f1
  Laurent Modolo authored Nov 26, 2021
  
  962ba1f1
25 Nov, 2021 1 commit
- chip_quant_analysis: add new normalization for WCE that take into input the expected calib ratio · d6fa559e
  Laurent Modolo authored Nov 25, 2021
  
  d6fa559e
24 Nov, 2021 7 commits
- coverage_analysis.nf: add metagen for ratio bw · 9dfcc9a0
  Laurent Modolo authored Nov 24, 2021
  
  9dfcc9a0
- chip_quant_r: fix metagen.R · f66bea01
  Laurent Modolo authored Nov 24, 2021
  
  f66bea01
- danpos.nf: rm bw mix in danpos bw for metagen · 9b18f9b5
  Laurent Modolo authored Nov 24, 2021
  
  9b18f9b5
- nextflow.config: add memory limit for singularity processes · 67a349a5
  Laurent Modolo authored Nov 24, 2021
  
  67a349a5
- coverage_analysis.nf: add new process for metagen bw ratio and stats · 1768f3d4
  Laurent Modolo authored Nov 24, 2021
  
  1768f3d4
- README.md: update nf command for dedup analysis with telo or not · 56665ed5
  Laurent Modolo authored Nov 24, 2021
  
  56665ed5
- chip_quant_r: bw_normalization and bugfix for metagen and parse_stat · f2a394d1
  Laurent Modolo authored Nov 24, 2021
  
  f2a394d1
23 Nov, 2021 1 commit
- bw_ratio.R: script to compute ratio between two bigwig files · 8d15ff96
  Laurent Modolo authored Nov 23, 2021
  
  8d15ff96
22 Nov, 2021 2 commits
- Merge remote-tracking branch 'origin/master' · 349631b0
  Laurent Modolo authored Nov 22, 2021
  
  349631b0
- parse_stats.R: rm library · 41276e7f
  Laurent Modolo authored Nov 22, 2021
  
  41276e7f
19 Nov, 2021 2 commits
- update chip_quant_r to 0.0.5 to apply correct OR to WCE · a188dd9a
  Laurent Modolo authored Nov 19, 2021
  
  a188dd9a
- add metagene plot for bw files generated in the coverage_analysis step · 06bd59e0
  Laurent Modolo authored Nov 19, 2021
  
  06bd59e0
16 Nov, 2021 1 commit
- mv rm_from_bed to after bam stats · 7413e682
  Laurent Modolo authored Nov 16, 2021
  
  7413e682
10 Nov, 2021 4 commits
- chip_quant_analysis.nf: remove unecessary parameters from fact_condencine project · 82b5e8a3
  Laurent Modolo authored Nov 10, 2021
  
  82b5e8a3
- update pipeline from git@gitbio.ens-lyon.fr:LBMC/Bernard/fact_condensin.git · 3b329938
  Laurent Modolo authored Nov 10, 2021
  
  3b329938
- Merge remote-tracking branch 'upstream/master' · 805010e7
  Laurent Modolo authored Nov 10, 2021
  
  805010e7
- chip_quant_r: restore v0.0.1 with fixed OR · d1ba48c1
  Laurent Modolo authored Nov 10, 2021
  
  d1ba48c1
09 Nov, 2021 4 commits
- parse_stats.R: script to compile mapping stats in one table · 7a15cdf6
  Laurent Modolo authored Nov 09, 2021
  
  7a15cdf6
- metagen.R: add +av_mnase_metagen_plot · 122214da
  Laurent Modolo authored Nov 09, 2021
  
  122214da
- chip_quant_r: add v0.0.4 with mnase_normalization.R · aacb8ccd
  Laurent Modolo authored Nov 09, 2021
  
  aacb8ccd
- manase_coverage_analysis.nf: use new mnase correction with expected calib ratio · 465cfdc6
  Laurent Modolo authored Nov 09, 2021
  
  465cfdc6
05 Nov, 2021 2 commits
- metagen.R: add TES and TSS plots · f68861fc
  Laurent Modolo authored Nov 05, 2021
  
  f68861fc
- mnase_danpos.nf: add TSS and TES matrix · 08cf53f9
  Laurent Modolo authored Nov 05, 2021
  
  08cf53f9
04 Nov, 2021 1 commit
- metagen.R: various plot improvments · c1693c36
  Laurent Modolo authored Nov 04, 2021
  
  c1693c36
03 Nov, 2021 1 commit
- chip_quant_r: new normalization with RPKM · 132eebc2
  Laurent Modolo authored Nov 03, 2021
  
  132eebc2
02 Nov, 2021 2 commits
- Merge remote-tracking branch 'upstream/master' · 8d7d49ae
  Laurent Modolo authored Nov 02, 2021
  
  8d7d49ae
- multiqc: remove view · 49eb0ea8
  Laurent Modolo authored Nov 02, 2021
  
  49eb0ea8