Releases: walaj/VariantBam
Release for PCAWG docker
Patch to bug in tag removal. Added --write--trimmed
There was a bug that was recently introduced that affected the tag removal functionality. This provides a patch. This version also adds --write-trimmed, which will clear the qual field (to *) and the sequence will be trimmed if a minimum phred score is supplied. Note that this will cause clashes with samtools because of the longer CIGAR string than the trimmed sequence, but the functionality is still useful for other operations.
Motif matching patch
Bug fix that fixes motif matching error. Adds OSX and RHEL 64-bit binaries.
SeqLib + Apache2 + Piping Support
This release moves to the new SeqLib core library. SeqLib has more robust support for piping and reading and writing SAM/CRAM/BAM files etc.
SeqLib is also Apache2, so I am making VariantBam Apache2 as well.
*Note that this with this release, I adopted a more samtools-like syntax, with -b now required for writing / streaming a BAM file
Pre-compiled binary on RHEL2.6 and GCC-5.1
variant2.6.32-642.3.1.el6.x86_64.zip
VariantBam 1.3.0
Major update to parsing script. VariantBam now uses JSON for scripting, rather than custom language.
Boost no longer a dependency
Added more versatile command line options to reduce need for scripting in most cases
Fixed bug with QC report generation