Commits · d696dd1277817c0c170759dbffb73c9832815581 · Chaos / chaos.juicer · GitLab

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Jun 05, 2019
- adding ability to handle multiple ligation junctions · d696dd12
  nchernia authored Jun 04, 2019
  
  d696dd12
- Adding in flag for no wobble / just exact duplicates · 92de655d
  nchernia authored Jun 04, 2019
  
  92de655d
- Adding in options to mega script; updating memory requirements · 90e05b27
  nchernia authored Jun 04, 2019
  
  90e05b27
- minor update to mem request · 809943d3
  nchernia authored Jun 04, 2019
  
  809943d3
- Making scripts more consistent by having check for system for juicer_tools path · a52e1760
  nchernia authored Jun 04, 2019
  
  a52e1760
- Major changes: · b18e0fb7
  nchernia authored Jun 04, 2019
  b18e0fb7
- adding in capability of no wobble / just exact duplicates · f9e9bd88
  nchernia authored Jun 04, 2019
  
  f9e9bd88
- some systems do not have zcat. also grep now handles more complicated ligation patterns · 9e2b476c
  nchernia authored Jun 04, 2019
  
  9e2b476c
- chimeric script should ignore header lines in SAM files · 94e871e8
  nchernia authored Jun 04, 2019
  
  94e871e8
Apr 26, 2019
- updating names to be consistent with new jar · 6be7c0f8
  Aiden Lab authored Apr 26, 2019
  
  6be7c0f8
- fixed some small issues that might have resulted in script reporting non existent problem · 94ec6919
  Aiden Lab authored Apr 25, 2019
  
  94ec6919
Apr 06, 2019
- CPU additions for justexact option, no fragment maps by default, changes to... · 284cb332
  nchernia authored Apr 06, 2019
  284cb332
Feb 26, 2019
- adding in addstats script for mega · 957de090
  nchernia authored Feb 25, 2019
  
  957de090
Feb 25, 2019
- Merge pull request #97 from sidiropoulos/PBS_fix · 00bb6c24
  nchernia authored Feb 25, 2019
  00bb6c24
- Merge branch 'master' of https://github.com/aidenlab/juicer into PBS_fix · 968032d4
  Nikos Sidiropoulos authored Feb 25, 2019
  
  968032d4
- Account for gzipped fastq files · ba6d69d8
  Nikos Sidiropoulos authored Feb 25, 2019
  
  ba6d69d8
- Tidy code · 1cc6c95a
  Nikos Sidiropoulos authored Feb 25, 2019
  
  1cc6c95a
- Tidy code · 4851e365
  Nikos Sidiropoulos authored Feb 25, 2019
  
  4851e365
- Make executable · da5002cf
  Nikos Sidiropoulos authored Feb 25, 2019
  
  da5002cf
- Add juicer_tools script · cebaffcd
  Nikos Sidiropoulos authored Feb 25, 2019
  
  cebaffcd
- Indent lines after if-else statements · 6b6a0748
  Nikos Sidiropoulos authored Feb 25, 2019
  
  6b6a0748
- Set delimiter to nothing when pasting fastq files · 06475c3c
  Nikos Sidiropoulos authored Feb 25, 2019
  
  06475c3c
- Make executable · 2817f1a6
  Nikos Sidiropoulos authored Feb 25, 2019
  
  2817f1a6
Feb 02, 2019
- Merge pull request #96 from Zojka/Zojka-patch-1 · 43cc35ff
  nchernia authored Feb 01, 2019
  43cc35ff
Jan 30, 2019
- multithreading for "bwa aln" · 7b8a26b1
  Zojka authored Jan 30, 2019
  7b8a26b1
Jan 08, 2019
- Merge pull request #92 from jemilianosf/patch-1 · 84f6957a
  nchernia authored Jan 07, 2019
  84f6957a
- Update calculate_map_resolution.sh · 124cbd56
  jemilianosf authored Jan 07, 2019
  124cbd56
Aug 05, 2018
- Update README.md · 50e7591c
  Muhammad Saad Shamim authored Aug 04, 2018
  
  50e7591c
May 14, 2018
- comment out unecessary · 590d7d0e
  nchernia authored May 14, 2018
  
  590d7d0e
- adding back in done split dir · df1b25f4
  nchernia authored May 14, 2018
  
  df1b25f4
Apr 07, 2018
- updating CPU version of mega to the more modern version · 1ef023d1
  nchernia authored Apr 06, 2018
  
  1ef023d1
Apr 06, 2018
- Mainly changing calls to qsub for new required flag l_hrt · 2b8a2a33
  nchernia authored Apr 06, 2018
  
  2b8a2a33
- Small updates to mega with exit codes; updating chmod modes of files · 09f63c40
  nchernia authored Apr 06, 2018
  
  09f63c40
- Adding stages and some other checks to the mega script · 6999168b
  nchernia authored Apr 06, 2018
  
  6999168b
- Bug fixes: postproc stage bug and count ligations finishing quickly · 6ec734a0
  nchernia authored Apr 06, 2018
  
  6ec734a0
Mar 21, 2018
- Merge pull request #54 from macroscian/patch-1 · d48dd4b6
  nchernia authored Mar 21, 2018
  d48dd4b6
- Escape errorfile, in case it has dots in it · 82515536
  macroscian authored Mar 21, 2018
  82515536
Dec 01, 2017
- Fixed HIC_tmp hardcoding · d3ee11b5
  nchernia authored Nov 30, 2017
  
  d3ee11b5
Nov 09, 2017
- Merge pull request #40 from mzhibo/master · d6550a32
  Aiden Lab authored Nov 08, 2017
  d6550a32
Nov 05, 2017
- moved up LC command so sort is correct · e2751746
  nchernia authored Nov 04, 2017
  
  e2751746

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