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v1.7.0
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@creisle creisle released this 13 Mar 18:16
v1.7.0
5a66c5e

New Features

  • convert option for the config command now accepts a variable number of input files to be converted
  • sequence complexity filtering option
  • Added mail options for slurm/sge

Improvements

  • Added a more complex pipeline example to the documentation
  • Added short contig assembly test
  • Breakpoint distance pairing now accounts for untemplated sequence
  • blat_rank has been renamed to alignment_rank and is now calculated for both bwa and blat
  • alignment_rank is used to filter contig alignments so that there is only one contig alignment per contig
  • Removed any unnecessary parameters
  • checker is now detecting command not found errors
  • filters spanning read alignments using the min contig score parameter (same filtering done on contigs)

BugFixes

  • Filtering contig alignments was getting highest rank instead of lowest. Best ranks are lower ranks
  • logs version for the configured aligner instead of just blat
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