All pull requests

Pull requests

• Fix QCPSuperimposer RMSD for a perfect fit of collinear points

  #5373·Mohit-Ak opened Oct 14, 2026Contributor·3 tasks done·

  ·
  1

  3

• Raise PDBIOException when residue name exceeds 3 characters (#5370)

  #5372·Kaustav5505g opened Oct 13, 2026Contributor·3 tasks done·

  ·
  1

  12

• Fix typos in documentation README

  #5371·bertholeo opened Oct 12, 2026·2 of 3 tasks·

  ·
  2

• Assign hydrogen to four character atom names like HNZ1

  #5366·popcoder565 opened Oct 9, 2026·

  ·
  1

• Fix DistanceCalculator identity model with skip_letters

  #5365·barlowa124 opened Oct 8, 2026·2 tasks done·

  ·

• Fix protein_scale for window 1 and even window sizes

  #5363·barlowa124 opened Oct 8, 2026·3 tasks done·

  ·
  1

• Fix CAI calculation for alternative genetic codes

  #5353·cipgi opened Oct 5, 2026Contributor·3 tasks done·

  ·
  1

  7

• Fix undefined vector angles and preserve planar dihedrals

  #5352·Oblivionis028 opened Oct 4, 2026·3 tasks done·

  ·
  1

  2

• GenBank: allow NA molecule type and fix LOCUS strandedness position

  #5350·bmokrytz opened Oct 2, 2026·3 tasks done·

  ·
  2

  4

• Fix D105 missing magic method docstrings in Bio.Seq and Bio.SeqRecord

  #5349·aashnology opened Oct 1, 2026·2 of 3 tasks·

  ·
  7

• Clip negative scores in DistanceCalculator._pairwise to keep distance in [0, 1]

  #5348·ChenziqiAdam opened Oct 1, 2026Contributor·2 of 3 tasks·

  ·
  1

  4

• Require AI usage declaration in PR template

  #5334·peterjc opened Sep 29, 2026Member·3 tasks done·

  ·
  3

• When the residue sequence identifier (line[22:26]) is empty, PDBPar…

  #5328·Lucioric2000 opened Sep 27, 2026·

  ·
  1

  1

• Fix: Update allowed mol_type values in EmblWriter

  #5323·corneliusroemer opened Sep 18, 2026Contributor·3 tasks done·

  ·
  1

  10

• Parse EMBL DT lines as record date

  #5318·NinjagoJaden1 opened Sep 16, 2026·3 tasks done·

  ·
  1

  3

• QCPSuperimposer: Kabsch SVD when quaternion cofactors vanish

  #5317·shaneraphel opened Sep 16, 2026·3 tasks done·

  ·
  1

  10

• Add missing D105 docstrings to PlateRecord magic methods in phen_micro.py

  #5313·alansha1 opened Sep 12, 2026·

  ·
  7

• Document ZeroDivisionError

  #5311·ChenziqiAdam opened Sep 10, 2026Contributor·3 tasks done·

  ·
  1

  5

• Issue #3600 - Replace assert statements with if statements in Bio.Align.tabular

  #5304·ssarmin opened Sep 4, 2026Contributor·3 tasks done·

  ·
  1

• Fix comparison of atom's element/pqr_charge/radius etc

  #5282·peterjc opened Aug 7, 2026Member·3 tasks done·

  ·
  1

• Add radius of gyration to Bio.PDB Entity (#5257)

  #5279·yiyabo opened Aug 5, 2026·2 of 3 tasks·

  ·
  1

  4

• Fix Nexus TRANSLATE block rejecting unquoted taxon names with hyphens (#1022)

  #5278·yiyabo opened Aug 5, 2026·2 of 3 tasks·

  ·
  1

  3

• Remove long deprecated Bio.pairwise2 code

  #5273·peterjc opened Aug 3, 2026Member·3 tasks done·

  ·
  4

  3

• Fix PDBList access to EBI and other mirrors (#3987)

  #5268·lilibai338431 opened Jul 30, 2026·3 tasks·

  ·
  3

• Update KEGG API

  #5255·synqa opened Jul 1, 2026·3 tasks done·

  ·
  1

  7