Commits · dbd5117972b324b8512ee2b12246e65f3c17d5d5 · Chaos / chaos.juicer

Browse files

Jan 12, 2022
- calculating stats from inter txt and m files · dbd51179
  Muhammad S Shamim authored Jan 11, 2022
  
  dbd51179
Jan 11, 2022
- Rename mega_from_bams_od.sh to mega_from_bams_diploid.sh · 4ff5fc44
  Muhammad Saad Shamim authored Jan 10, 2022
  
  4ff5fc44
- Merge pull request #251 from dudcha/encode-mega · 8a8ed5f1
  Muhammad Saad Shamim authored Jan 10, 2022
  8a8ed5f1
- add raw and control accessibility · ca33ac47
  dudcha authored Jan 10, 2022
  
  ca33ac47
- add mapq30 haploid accessibility · cd73fad4
  dudcha authored Jan 10, 2022
  
  cd73fad4
Jan 10, 2022
- running-end-to-end · 246a5858
  dudcha authored Jan 10, 2022
  
  246a5858
- up and including dhs step · 65537d79
  dudcha authored Jan 10, 2022
  
  65537d79
- Efficient bam-to-mnd · 22b47a86
  dudcha authored Jan 10, 2022
  
  22b47a86
- mostly basic debugging · d9c19d50
  dudcha authored Jan 09, 2022
  
  d9c19d50
Jan 09, 2022
- end-to-end first iteration · c49fa2a6
  dudcha authored Jan 09, 2022
  
  c49fa2a6
- simplified mega script first partial commit · f45ac064
  dudcha authored Jan 09, 2022
  
  f45ac064
- simplified mega script · 2fd378f3
  dudcha authored Jan 08, 2022
  
  2fd378f3
- update add stats file · d95bf1dc
  Muhammad S Shamim authored Jan 08, 2022
  
  d95bf1dc
- fix version · 70388c1c
  Muhammad S Shamim authored Jan 08, 2022
  
  70388c1c
- fix juicer_tools script · 48d26a0e
  Muhammad S Shamim authored Jan 08, 2022
  
  48d26a0e
- update postproc script in cpu · 60b3689d
  Muhammad S Shamim authored Jan 08, 2022
  
  60b3689d
- update hiccups script in cpu · 2d7faa08
  Muhammad S Shamim authored Jan 08, 2022
  
  2d7faa08
- update arrowhead in cpu · 30a3901d
  Muhammad S Shamim authored Jan 08, 2022
  
  30a3901d
- update stats · 706abfa9
  Muhammad S Shamim authored Jan 08, 2022
  
  706abfa9
- update stats · 4b6707ba
  Muhammad S Shamim authored Jan 08, 2022
  
  4b6707ba
Jan 08, 2022
- bam merging · 59c5cf7c
  Muhammad S Shamim authored Jan 08, 2022
  
  59c5cf7c
- mega from bams · a1d52a10
  Muhammad S Shamim authored Jan 08, 2022
  
  a1d52a10
- script cleanup · 4de24aa7
  Muhammad S Shamim authored Jan 08, 2022
  
  4de24aa7
- update cpu mega script · b584d8e7
  Muhammad S Shamim authored Jan 08, 2022
  
  b584d8e7
- file check fix · 07cbe452
  Muhammad S Shamim authored Jan 08, 2022
  
  07cbe452
Nov 09, 2021
- bug fix · 7b21fd62
  Muhammad S Shamim authored Nov 08, 2021
  
  View commits for tag encode_tag_disk1 encode_tag_disk1
  
  7b21fd62
Sep 21, 2021
- Merge pull request #240 from aidenlab/single_dedup · 3cbd828f
  nchernia authored Sep 20, 2021
  3cbd828f
Sep 20, 2021
- small change with if statement causing issues · 1229e3b0
  nchernia authored Sep 19, 2021
  
  1229e3b0
Sep 18, 2021
- simplifying logic for qc and in-situ · 514a9baf
  nchernia authored Sep 17, 2021
  
  514a9baf
- adding some qc flags, adjusting dups sum for single end · 81226095
  nchernia authored Sep 17, 2021
  
  81226095
Sep 17, 2021
- updated CPU scripts to be consistent with SLURM · 1593fbe5
  Neva C. Durand authored Sep 16, 2021
  
  1593fbe5
- Merge branch 'single_dedup' of https://github.com/aidenlab/juicer into single_dedup · 1fe33682
  Neva C. Durand authored Sep 16, 2021
  
  1fe33682
- Major change to terminology · fb774abb
  Neva C. Durand authored Sep 16, 2021
  
  fb774abb
- adding RG tag for single end, moving the bam job later in thee e sequence · 605341bd
  Neva C. Durand authored Sep 16, 2021
  
  605341bd
- fragstr tag different for single end rt:A:7 so that they are separated within... · a65e8980
  Neva C. Durand authored Sep 16, 2021
  a65e8980
Aug 26, 2021
- assembly handling stats properly; counting mapq properly for single end · eefe2969
  nchernia authored Aug 26, 2021
  
  eefe2969
- Dedupping single end · 339420a3
  Neva C. Durand authored Aug 26, 2021
  
  339420a3
- assembly should not need chrom sizes. no hg19 default. for single end,... · adac7b18
  Neva C. Durand authored Aug 26, 2021
  adac7b18
- Dedupping single end · 06a814a8
  Neva C. Durand authored Aug 26, 2021
  
  06a814a8
Aug 13, 2021
- fixing assumption of two reads for duplicate marking · b8d3581f
  nchernia authored Aug 13, 2021
  
  b8d3581f

Admin message

Commits · dbd5117972b324b8512ee2b12246e65f3c17d5d5