v1.5.3

VCF output fixes

v1.5.2

• new post-processing of GMM clustering results
• VCF v4.5

v1.5.1

1. Motif can be - (not specified) in BED file for genotyping (e.g. useful for RFC1)
2. --symbolic to output ALT alleles in symbolic forms (only performed when detected motif is the same as REF)
3. refer to CHANGE log for various bugfixes

v1.5.0

• output VCF
• CRAM support

v1.4.1

• Including partials (reads that do not capture entire tandem repeat) is now optional, as feature will significantly increase run-time
• using regex for generic motif genotyping (e.g. A***G) instead of using TRF now functional again after v1.4.0 changes
• other bugfixes

v1.4.0

• more information (failed reads, coverage depth, etc) in tsv output
• usage of unpaired clipped alignments in genome scan for capturing expansions beyond read length and in genotyping report
• allows usage of ALT chromosomes in genome scan and bug fix for checking chromosome boundary violation

v1.3.0

More efficient handling of BLAST alignments leads to major improvement in speed. Additions of various features in response to user requests (see CHANGES).

Additional output, test data, bug fixes, and more

See CHANGES for list of changes which include additional output bed file, inclusion of test data, etc.

Final release before publication

Fixes that make pip installation work, additional documentation, less verbose alternative output, and some minor bug fixes.

First public release for manuscript

v1.0.0

publication release