Version 7.1¶

Version 7.1.0¶

This is a minor version release. It adds the following features:

pVACtools now supports additional prediction algorithms:
- TLBind (binding and presentation)
- TLImm (immunogenicity)
These algorithms also support normalized percentiles using the --use-normalized-percentiles flags. by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1377

Additionally, it fixes the following problem(s):

Fix tiers argument type to have the most up-to-date tier list by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1423
Fix NetChop bug that would include position before epitope (0) by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1432
Fix bug in lowexpr logic by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1433
Fix tbi file existence check in pVACsplice runs by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1434

This is a bugfix release. It fixes the following problem(s):

Fix TLBind WT Presentation Percentile not getting set correctly by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1436

This is a bugfix release. It fixes the following problem(s):

Fix AGFusion read support calculation when running with STAR-fusion input by @YT-er in https://github.com/griffithlab/pVACtools/pull/1445
Replace remaining mentions of pvacseq valid_alleles with pvactools valid_alleles by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1448
Clean up packaging metadata and repository artifacts by @YT-er in https://github.com/griffithlab/pVACtools/pull/1446

This is a bugfix release. It fixes the following problem(s):

Correctly handle gene name parsing from fasta headers for genes with lowercase characters. by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1456
Normalize MixMHC2pred alleles to match other class II allele formats. by @susannasiebert in https://github.com/griffithlab/pVACtools/pull/1454