Issues

• Parsing of value-less parameters is mzid: true/false instead of empty?

  CompOmics/psm_utils#153 · Filter by author julianu opened on Sep 16, 2026

• Pyteomics v5 compatibility: Peptidoform fails for user-defined modification names

  Task

  CompOmics/psm_utils#151 · Filter by author RalfG opened on Jun 5, 2026
  1

• PSMList.__setitem__ should accept np.ndarray values

  CompOmics/psm_utils#144 · Filter by author RalfG opened on Apr 14, 2026

• Peptidoforms parsed from MaxQuant output are not always valid

  CompOmics/psm_utils#138 · Filter by author levitsky opened on Nov 6, 2025
  4

• Peptidoform properties: TagBase vs ModificationBase?

  CompOmics/psm_utils#137 · Filter by author RalfG opened on Nov 5, 2025

• Investigate parsing of mzIdentML SubstituteModification entries

  CompOmics/psm_utils#77 · Filter by author RalfG opened on Apr 8, 2024

• Infer encoding of text-based files?

  CompOmics/psm_utils#68 · Filter by author RalfG opened on Feb 15, 2024

• Add support for newer PD MSF file versions

  enhancement
  CompOmics/psm_utils#64 · Filter by author RalfG opened on Nov 30, 2023

• Speed up writing of mzIdentML files

  help wanted
  CompOmics/psm_utils#36 · Filter by author RalfG opened on Jun 19, 2023
  1

• Increase test coverage

  good first issuehelp wanted
  CompOmics/psm_utils#24 · Filter by author RalfG opened on Nov 6, 2022

• Decrease time of MzidReader by inferring source another way

  bugquestion
  CompOmics/psm_utils#22 · Filter by author ArthurDeclercq opened on Nov 4, 2022