Commits · cdb153d4e2c92cc84d4999271e80e4681ab43c5e · igmmbioinformatics / trio-whole-exome

Aug 19, 2020
- Updated paths to u035 · cdb153d4
  ameyner2 authored 4 years ago
  
  cdb153d4
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
Oct 16, 2019
- Fixed bug with DOS newlines in PED file causing variant target regions not to... · c1131b20
  ameyner2 authored 5 years ago
  
  Fixed bug with DOS newlines in PED file causing variant target regions not to be included in the YAML config file properly
  c1131b20
- Added fix of VCF output file names · ab9dbf25
  ameyner2 authored 5 years ago
  
  ab9dbf25
Sep 25, 2019
- Fix VCF file names in output directories · baa4acd8
  ameyner2 authored 5 years ago
  
  baa4acd8
Sep 23, 2019
- Initial commit of md5 checksum script for archiving · 61be2bf6
  ameyner2 authored 5 years ago
  
  61be2bf6
- Initial commit of CRAM compression script and addition of reference genome path to config file · ce1b6a18
  ameyner2 authored 5 years ago
  
  ce1b6a18
- Initial commit · 796251ce
  ameyner2 authored 5 years ago
  
  796251ce