fulcrumgenomics/fgsv

Issues

• `SvPileup` should ignore reads marked as duplicates

  #41 opened 6 months ago by ameynert
  3

• AggregateSvPileup should report the number of reads associated with each position

  #39 opened 9 months ago by msto
  0

• Semantic versioning is not followed on development versions

  #38 opened 9 months ago by nh13
  0

• Are some "Possible Deletion"s actually intra-contig rearrangements?

  #32 opened a year ago by nh13
  0

• Document running the tools and any bwa mem options

  #11 opened 3 years ago by nh13
  0

• fgsv should enable easier review in IGV

  #25 opened a year ago by tfenne
  1

• SvPileup should handle circular contigs better

  #24 opened a year ago by tfenne
  1

• SvPileup writes a query-grouped BAM, but AggregateSvPileup requires a coordinate sorted and index BAM

  #15 opened a year ago by nh13
  1

• SvPileup should allow some minimal filtering

  #26 opened a year ago by tfenne
  1

• `AggregateSvPileup` should account for inaccurate split-read breakpoint positions

  #13 opened 3 years ago by pamelarussell
  1

• Cannot get mate end position on read without a mapped mate.

  #16 opened 2 years ago by nh13
  1

• Tools doc symlink broken

  #12 opened 3 years ago by nh13
  0