everhartlab/read-processing

Issues

• Add better documentation

  #15 opened 7 years ago by zkamvar
  0

• Check maxins for Bowtie2 to make sure 800 is cromulent

  #14 opened 7 years ago by zkamvar
  0

• Make the vcf concatenation step less dumb

  #13 opened 7 years ago by zkamvar
  0

• use -c for merging SAM files?

  #12 opened 7 years ago by zkamvar
  1

• Picard Error: First of pair flag should not be set for unpaired read

  #11 opened 7 years ago by zkamvar
  11

• reformat Makefile

  #5 opened 7 years ago by zkamvar
  0

• Loop over chromosomes to avoid submission overflow

  #7 opened 7 years ago by zkamvar
  1

• Finalized trimmomatic parameters

  #4 opened 8 years ago by nikitagambhir
  1

• make-GATK-intervals can't handle multiple chromosomes

  #3 opened 8 years ago by zkamvar
  0