Issues

• Investigate possible utility of TCRbridge (AlphaBridge, Alphafold3)

  griffithlab/pVACtools#1470 · Filter by author malachig opened on Sep 25, 2026

• Interpreting junction scores in pVACvector.

  griffithlab/pVACtools#1468 · Filter by author bioaman opened on Sep 21, 2026
  1

• Update pVACcompare list of valid columns

  bug report / hotfix PR
  griffithlab/pVACtools#1465 · Filter by author susannasiebert opened on Sep 17, 2026

• pVACseq should handle frameshift that fall "within the region of the splice site"

  griffithlab/pVACtools#1464 · Filter by author susannasiebert opened on Sep 14, 2026

• Don't use special characters in tmp file names

  griffithlab/pVACtools#1455 · Filter by author susannasiebert opened on Aug 24, 2026 · 8.0

• add support for ctat-lr-fusion expression

  feature addition
  griffithlab/pVACtools#1450 · Filter by author mhoang22 opened on Aug 11, 2026
  

• Implement a "recommended" algorithm option

  griffithlab/pVACtools#1449 · Filter by author susannasiebert opened on Aug 11, 2026 · 7.2

• Does pvacseq run support custom HLA/MHC sequencing input via NetMHCpan's -hlaseq option for non-model organisms?

  griffithlab/pVACtools#1415 · Filter by author noralis-bit opened on Jul 6, 2026

• Consider new stability prediction algorithm SPEARMINT

  griffithlab/pVACtools#1413 · Filter by author malachig opened on Jul 1, 2026

• Remove the Combined results

  griffithlab/pVACtools#1412 · Filter by author susannasiebert opened on Jun 29, 2026 · 8.0

• Add AA -> mRNA backtranslation to pVACvector

  griffithlab/pVACtools#1411 · Filter by author susannasiebert opened on Jun 16, 2026 · 8.0

• Proposal: staged behavior-preserving refactor of tool responsibility placement

  griffithlab/pVACtools#1408 · Filter by author martin1cifuentes opened on Jun 6, 2026
  3

• Update IEDB to use Next-Generation (NG) IEDB Tools API

  griffithlab/pVACtools#1400 · Filter by author susannasiebert opened on May 21, 2026 · 8.0

• Add NMD prediction support

  griffithlab/pVACtools#1370 · Filter by author mhoang22 opened on Mar 6, 2026

• pVACview crashing/blanking out when uploading large metrics.json file (313MB+)

  griffithlab/pVACtools#1365 · Filter by author bioaman opened on Feb 10, 2026
  12

• Suggestion to use WhatsHap for phasing VCFs

  griffithlab/pVACtools#1362 · Filter by author jonng1000 opened on Jan 22, 2026 · 8.0
  2

• Investigate AEGIS for class II prediction

  prediction_algorithms
  griffithlab/pVACtools#1361 · Filter by author malachig opened on Jan 16, 2026

• Investigate MARIA for class II predictions

  prediction_algorithms
  griffithlab/pVACtools#1360 · Filter by author malachig opened on Jan 16, 2026

• Use tumor ploidy and cellularity estimates from FACETS and/or Sequenza for clonality assessment

  feature addition
  griffithlab/pVACtools#1355 · Filter by author susannasiebert opened on Jan 5, 2026
  1

• TypeError: a bytes-like object is required, not 'NoneType'

  bug report / hotfix PR
  griffithlab/pVACtools#1347 · Filter by author hwismer opened on Dec 9, 2025
  13

• Investigate adding pMHCchat as an additional binding prediction tool

  prediction_algorithms
  griffithlab/pVACtools#1269 · Filter by author ksinghal28 opened on Jul 15, 2025

• Allow filtering and sorting on the Acpt/Rev/Rej columns in pVACview

  pVACview
  griffithlab/pVACtools#1256 · Filter by author susannasiebert opened on Jun 25, 2025

• Add a command to create a colored ordering TXT/DOC file for DNA vectors

  griffithlab/pVACtools#1251 · Filter by author susannasiebert opened on Jun 18, 2025

• Running pVACSeq on multiple samples

  griffithlab/pVACtools#1246 · Filter by author xiw588 opened on Jun 3, 2025
  13

• Add additional info to pvacsplice aggregate report

  griffithlab/pVACtools#1239 · Filter by author mhoang22 opened on May 23, 2025 · 8.0
  11