- Added `filter-normal` command for somatic SV filtering. - Support for Python 3.11 (linux) - Run/call command added to vcf header
Bug fixes --------- - Fixed over counting of within-read SVs from same read - Prevent clustering of same-read events - Fixed supplementary clustering issue
1.3.16
Minor release with features: - `dysgu merge` now has a default `--collapse-nearby True` option for better merging of nearby SVs - added support for building using conda htslib using `python setup.py install --conda-prefix $PREFIX` or setting PREFIX as an environment variable
Bug fix: - py_call_code error
1.3.14
Minor release with bug fixes: - compatibility for numpy >= 1.22 - index error for adding `--sites` - type error during graph construction https://github.com/kcleal/dysgu/issues/51
Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.
1.3.12
Minor bug fixes:
- GC type error when merging at population level - `--regions-only True` now works as expected - Contigs are now kept in file when merging
Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.
1.3.10
Improvements:
- Improvements to merging - more aggressive for TRA, less aggressive for nearby DEL - Slightly improved mem requirements