v1.3.16

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

v1.3.14

Minor release with bug fixes:

• compatibility for numpy >= 1.22
• index error for adding --sites
• type error during graph construction #51

Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.

v1.3.12

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.

v1.3.10

Improvements:

• Improvements to merging - more aggressive for TRA, less aggressive for nearby DEL
• Slightly improved mem requirements

Bug fixes:

• X/= style cigar strings work properly
• Fixed .csv merging bug

Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.

v1.3.7

Improvements:

Removed ncls from requirements

Bug fixes:

TRA now appear in long-read output again

Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.

v1.3.5

Improvements:

• Added --low-mem option that can reduce memory requirements
• Support for single-end short reads (compatible with paired-end model)

Bug fixes:

• CHR2_POS now reported for translocations

Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.

v1.3.4

Improvements:

• Better inversion calling for long-reads

• Better merging of small variants

• dysgu call can be used for short reads to save disk space

Bug fixes:

• --sites option now works with multiprocessing
• Fixed ZeroDivisionError for clip_qual_ratio
• Fixed ValueError for REP/REPSC

Download source code using the dysgu.tar.bz2 link below, otherwise htslib will be missing.