breseq v0.34.0
jeffreybarrick
released this
14 Sep 02:55
·
243 commits
to master
since this release
- Fixed bug where two rejected JC evidence items could predict a mutation.
- Added new option
--junction-minimum-pr-no-read-start-per-position
to prevent saturation
of coverage in high-coverage samples from leading to rejection of valid JC prediction.
Set this option to 0.0 if you want to use the behavior of previous versions. - Changed default for
--consensus-frequency-cutoff
to be 0.8 in polymorphism mode,
instead of 0.0, to prevent accepting rejected polymorphism RA items as consensus predictions. - Added the ability to predict DEL spanning the origin of a circular reference sequence.
- Changed plotting scripts to be more compatible with fonts available to different versions of R.
- Miscellaneous fixes to make
gdtools
commands more robust.