- Fixes bug in VCF processing to identify VAF field
0.3.6
- Adds functionality for a variety of new binding affinity prediction tools - Adds transcript type, gene ID, gene name, and IEDB epitope identifier fields to output - Removes necessity for `neoepiscope swap` mode (functionality retained)
0.3.5
- Updates haplotype processing to fix bug with complex indels - Adds MANIFEST.in to address bug in PyPI installation
0.3.3
* Fixes bug that prevented processing of user-specified reference data for use in neoepitope predictions
0.3.2
* Adds processing step to break down haplotypes containing incompatible variants that are reported to be phased together
0.3.0
* Corrects previous variant phasing error by including homozygous variants in relevant haplotype blocks * Corrects handling of intron-exon boundary deletions to truncate transcripts * Corrects annotation of transcripts with start/stop codons split across multiple exons * Expands functionality to allow for variant phasing using either HapCUT2 or GATK's ReadBackedPhasing * Updates default gene annotation for _hg38_ to GENCODE v29 * Updates code for compatibility with intervaltree v3.0.2