1. 24 Oct, 2019 5 commits
  2. 23 Oct, 2019 1 commit
    • van den Berg's avatar
      Compare allele genotypes directly · fb075df9
      van den Berg authored
      Previously we used cyvcf2 gt_types, which indicate whether a site is
      hom_ref, heterozygous, hom_alt or unknown. A limitation of this approach
      is that it only makes sense when the two vcf files have the same REF and
      ALT alleles for a given position.
      
      If this was not the case, vtools would silently skip the variant.
      However, even when the ALT alleles are different between two vcf files,
      the actual genotypes can still be compared. This was implemented in this
      commit, which also fixes issue #8.
      fb075df9
  3. 22 Oct, 2019 8 commits
  4. 27 Aug, 2019 4 commits
  5. 26 Aug, 2019 2 commits
  6. 14 Aug, 2019 1 commit
  7. 08 Aug, 2019 1 commit
    • van den Berg's avatar
      Write stats to stdout by default · 70d3ac7f
      van den Berg authored
      This is also the default behaviour in master. This change restores
      the default behaviour, while still preserving the option to write
      the stats json directly to a file by specifying --stats.
      70d3ac7f
  8. 31 Jul, 2019 2 commits
  9. 15 May, 2019 1 commit
  10. 07 May, 2019 15 commits