Version 4.2

Version 4.2.0

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

  • We added two new modules to pVACview: a Neofox Module to visualize NeoFox neoantigen annotations and a Custom Module to visualize neoantigen data in a TSV file, for example output files from VaxRank, NeoPredPipe, or antigen.garnish.2.

  • We added a vignette to our documentation to provide an extended tutorial on how evaluate neoantigen candidates using pVACview.

This release also fixes the following bug(s):

  • When running pVACfuse with Arriba input data, the 3’ transcript was not being parsed correctly. This release fixes this issue.

Version 4.2.1

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

  • When running the reference protome similarity step with a reference protome peptide fasta file and a species other than human or mouse, the run would be aborted with an error that the refseq_protein_prot BLASTp database was incompatible with the species. This error should not be emitted in this circumstance since BLASTp is not run when using a reference proteome peptide fasta file. This release fixes this error and allows users to run the reference proteome similarity step on non-human and non-mouse data with a reference proteome peptide fasta.