Commits · 45dc3b00d76546b22e5668c9b5241afd0d0bf930 · igmmbioinformatics / trio-whole-exome

Aug 19, 2020
- Changed u027 to u035 · 45dc3b00
  ameyner2 authored 4 years ago
  
  45dc3b00
- Merge branch 'master' of git.ecdf.ed.ac.uk:igmmbioinformatics/trio-whole-exome · 453f4080
  ameyner2 authored 4 years ago
  
  453f4080
- Removed unnecessary logging · 751a8a64
  ameyner2 authored 4 years ago
  
  751a8a64
- Fixed bcbio tools path · 14e58455
  ameyner2 authored 4 years ago
  
  14e58455
- Changed log directory to scratch. · 494dcbbd
  ameyner2 authored 4 years ago
  
  494dcbbd
- Bcbio tools path · a426c516
  ameyner2 authored 4 years ago
  
  a426c516
- Tool path. · 07622dc8
  ameyner2 authored 4 years ago
  
  07622dc8
- bcbio tools path. · 4d0c5c4f
  ameyner2 authored 4 years ago
  
  4d0c5c4f
- Tools path. · fac83323
  ameyner2 authored 4 years ago
  
  fac83323
- Clean up pilot submission script, add shared vars script · c0508979
  ameyner2 authored 4 years ago
  
  c0508979
- Merge with master · 0849b8df
  ameyner2 authored 4 years ago
  
  0849b8df
- Updated paths to u035 · cdb153d4
  ameyner2 authored 4 years ago
  
  cdb153d4
- Fixed links. · 4acc9fe9
  ameyner2 authored 4 years ago
  
  4acc9fe9
- Set ulimit -n higher · 5b9b17b2
  ameyner2 authored 4 years ago
  
  5b9b17b2
- Changed bcbio tools path. · 61cd934a
  ameyner2 authored 4 years ago
  
  61cd934a
- Changed bcbio tools path. · 789df815
  ameyner2 authored 4 years ago
  
  789df815
- Changed bcbio tools path. · 07b9158c
  ameyner2 authored 4 years ago
  
  07b9158c
- Initial commit with Aspera, VASE, bcbio. · a86e7448
  ameyner2 authored 4 years ago
  
  a86e7448
Aug 17, 2020
- Upload New File · 5a844370
  ameyner2 authored 4 years ago
  
  5a844370
- Replace genomic_data_storyboard_DRAFT4_FINAL.pdf · 033cb257
  ameyner2 authored 4 years ago
  
  033cb257
- Fixed typo in grep for md5 check · a4e522c7
  ameyner2 authored 4 years ago
  
  a4e522c7
- Initial commit from Word document. · bdee2f98
  ameyner2 authored 4 years ago
  
  bdee2f98
- Fixed u027 to u035 typo. · c38d8c16
  ameyner2 authored 4 years ago
  
  c38d8c16
- Initial commit of archiving SOP from Word version. · 283e04d1
  ameyner2 authored 4 years ago
  
  283e04d1
- PDF of storyboard for trio whole exome process. · 922289d6
  ameyner2 authored 4 years ago
  
  922289d6
- Adobe Illustrator format of storyboard for trio whole exome analysis process. · 40c6f562
  ameyner2 authored 4 years ago
  
  40c6f562
- Added the remainder of the SOP copied from the Word document, with substitution of u035 for u027 · d19c3843
  ameyner2 authored 4 years ago
  
  d19c3843
- Test initial document. · ce80a695
  ameyner2 authored 4 years ago
  
  ce80a695
- SOPs & other documentation · bfe7dc70
  ameyner2 authored 4 years ago
  
  bfe7dc70
Jun 30, 2020
- Backing up trio whole exome scripts · 4f1fc3a7
  ameyner2 authored 4 years ago
  
  4f1fc3a7
Feb 10, 2020
- Fixed if empty line in PED file, added ped check files to md5sum generation for archiving · f4797a54
  ameyner2 authored 5 years ago
  
  f4797a54
- Parses peddy ped check output from bcbio to flag up sample swaps · 75652ec0
  ameyner2 authored 5 years ago
  
  75652ec0
Feb 06, 2020
- Allowed for multiple QC reports · 2a1db33d
  ameyner2 authored 5 years ago
  
  2a1db33d
Jan 09, 2020
- Fixed exclusion of BAM files · f500c594
  ameyner2 authored 5 years ago
  
  f500c594
Jan 08, 2020
- Added scripts for archiving trio whole exomes, archive path in config file · 47cead98
  ameyner2 authored 5 years ago
  
  47cead98
Nov 26, 2019
- Reads are merged/linked into per-project directories to avoid sample id collisions for repeats. · 6cc144e5
  ameyner2 authored 5 years ago
  
  6cc144e5
Nov 25, 2019
- Corrected target file · 55e770b8
  ameyner2 authored 5 years ago
  
  55e770b8
- Added error reporting to flag up cases where individual/family id might not... · 9345ba5c
  ameyner2 authored 5 years ago
  
  Added error reporting to flag up cases where individual/family id might not match b/w PED and file_list.tsv
  9345ba5c
Oct 18, 2019
- Fixed filename fixing · ad9322c4
  ameyner2 authored 5 years ago
  
  ad9322c4
Oct 17, 2019
- Updated to use TWIST targets plus 15bp padding · 207fb5d3
  ameyner2 authored 5 years ago
  
  207fb5d3