bguo068/snp_call_nf

Issues

• Potential Truth/Known Variant Set

  #14 opened 7 months ago by Matthew-A-epi
  0

• add publishDir to link raw joint-call VCFs to the result folder

  #13 opened a year ago by bguo068
  0

• sort gatherred input to avoid randomness and allow resumability

  #11 opened a year ago by bguo068
  2

• focus on core genome

  #12 opened a year ago by bguo068
  0

• generate “known_snps_unsorted.vcf” for a ref genome of different species or version

  #3 opened 2 years ago by bguo068
  1

• add summary for bedtool genomecov results

  #1 opened 2 years ago by bguo068
  1

• Saturation/Rarefaction Capability

  #5 opened 2 years ago by bguo068
  3

• add stats for read length, no of reads mapped to host and parasite

  #2 opened 2 years ago by bguo068
  3

• update documentation on prep reference files

  #7 opened 2 years ago by bguo068
  1

• better default for tmpdir

  #10 opened 2 years ago by bguo068
  1

• update genome intervals

  #9 opened 2 years ago by bguo068
  1

• add stub for all processes

  #6 opened 2 years ago by bguo068
  0

• alternative way of mapping reads to host vs parasite genome

  #4 opened 2 years ago by bguo068
  1