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Updated changelog.txt
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pcingola committed Oct 11, 2019
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32 changes: 32 additions & 0 deletions changelog.txt
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Version 1.7.0
- Project updated
- Project updated
- Project updated
- Added distribution files
- Update version number
- Fixed issue with AMP in allele: hicnt and hicov for many insertions and SV were changed. Total coverage for part of the insertion changed. Added changes for chimeric reads in modify cigar part.
- Typo fixes
- Fix in description of alleles length filter
- Added explanation for bias flag
- Fixed inaccuracy in docs
- Updated changelog for 1.6.0 version
- Added commit and push for modified changelog.txt
- Added creation of release notes in release script.
- Fixed case when deletion can appear next to hard clip after modifying CIGAR.
- Added Trusty to Travis so oracleJdk8 will work.
- Fix Readme for -O option
- Fix for frequency. Test added.
- Fix README typos, grammar and markup.
- VCF updated to 4.3. specification version. MQ changed to Integer, AF field to A, BIAS contains 2 numbers.
- Also fixed one discrepancy in old part of cigar modifying for 2 insertions.
- Fixed issue 243. Cigar modify for 3 indels in case when match on reference if with a big deletion.
- Oracle JDK 12 in travis removes, added as openjdk 12
- Oracle JDK 12 in travis
- Added skipping of adaptor sequences at the end of chromosome.
- Added test case with artificial data.
- Fixed reference bases at the end of reference.
- Readme updated.
- Added options for non-monomer (--nmfreq) and monomer (--mfreq) frequency thresholds.
- Project updated
- Added VCF tests for simple and somatic modes.

Version 1.6.0
- Fixed REF allele for DEL SV: in cases when reference allele length is more than 1 base REF was not the first base in SV region, but the last one.
- Fixed genotype field: it could be displayed incorrectly (parts of genotype from different variants united) when several variants appear on one position (i.e. multiallelic). Now genotype is created for each variant separately.
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