bede/kindel

Issues

• Does Kindel consensus consider base qualities?

  #21 opened 3 years ago by sureman
  1

• Better handle deletions in N padded refs

  #20 opened 4 years ago by bede
  0

• Update report format to include substitutions

  #19 opened 4 years ago by bede
  0

• Output global alignment of input vs output?

  #18 opened 4 years ago by bede
  0

• Implement adjustable consensus threshold

  #17 opened 4 years ago by bede
  0

• Wrapper for easy reference guided contiguation + consensus of assemblies

  #10 opened 7 years ago by bede
  2

• Test plotting

  #15 opened 5 years ago by bede
  1

• ValueError: min() arg is an empty sequence

  #16 opened 4 years ago by joelnitta
  4

• Handle missing LN fields in @SQ headers

  #9 opened 7 years ago by bede
  1

• OOPify `bam_to_consensus()`

  #6 opened 7 years ago by bede
  0

• Test against large genomes

  #12 opened 5 years ago by bede
  1

• Test with graphmap, minimap2, bbmap

  #4 opened 5 years ago by bede
  1

• Test against multiple contigs

  #8 opened 5 years ago by bede
  1

• 'mask_ends' is not defined

  #14 opened 6 years ago by lneaves
  0

• Replace N's with the reference

  #13 opened 6 years ago by migrau
  3

• Missing setup.py version declarations

  #2 opened 7 years ago by bede
  1

• Reimplement deprecated ` --threshold-weight` parameter from v0.1.4

  #11 opened 7 years ago by bede
  0

• Review handling of SAM 1.4+ CIGAR ops

  #3 opened 7 years ago by bede
  6

• Test against long reads

  #7 opened 7 years ago by bede
  0

• Review handling of non-terminal Ns

  #5 opened 7 years ago by bede
  0