Skip to content

v0.91
Compare
Choose a tag to compare
@mozack mozack released this 20 Mar 20:36
· 52 commits to master since this release
v0.91
39e8091

This release is mostly related to compute performance with a couple of minor usability tweaks.

Exposed bwa index prefix as optional param distinct from reference fasta.

Graph pruning improvements:

  • Parameterized min edge ratio and increased default to 2% (10% recommended for germline)
  • Use per sample edge ratio instead of aggregate ratio in edge pruning for multi-sample cases

Fixed bug in reading beyond end of reference sequence.

Compute performance improvements

  • More intelligent downsampling for assembly (reduces memory issues in exceedingly high depth cases)
  • Reduced intermediate file I/O - now consuming BWA output directly
  • Upgraded to current picard and htsjdk jars allowing for use of IntelDeflator for BAM compression
  • More efficient SAM record parsing
  • Introduced thread pooling
  • Reduced logging (to some degree)
Assets 3
Loading