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v0.3.0

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@blahah blahah released this 25 Jul 14:47
· 458 commits to master since this release
v0.3.0
2b51eff

Features:

  • metrics on each contig are now calculated and output to a file (by default, transrate_contigs.csv)
  • output files can have a custom prefix with the --outfile argument

Improvements:

  • all inline C methods replaced with extension C (cleaner code, only compiles once on install)
  • linguistic complexity now calculated in C (400x speedup)
  • support new CRB-BLAST feature that splits BLAST query into one chunk per core (faster than threaded BLAST in most cases)
  • check dependencies at every run and give instructions for installing them if missing

Bug fixes:

  • remove redundant express dependency
  • fix parsing of samtools mpileup output so contig names are now matched up
  • fix bug where null characters in contigs weren't handled (wtf are null characters doing in contigs, Trinity?)
  • handle all bases that aren't ACTG by considering them to be Ns
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