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Pull requests list

Update ScanProsite.py so that scan function works properly
#4545 by BairdMcI was merged Dec 20, 2023 Loading…
3 tasks done
deprecating Bio.HMM submodules
#4544 by mdehoon was merged Dec 20, 2023 Loading…
3 tasks done
Gap consensus part three
#4543 by mdehoon was merged Dec 19, 2023 Loading…
3 tasks done
gap_consensus deprecation part two
#4541 by mdehoon was merged Dec 16, 2023 Loading…
3 tasks done
Gap consensus
#4540 by mdehoon was merged Dec 16, 2023 Loading…
3 tasks done
Stop enforcing NumPy 1.13 style repr output for doctests
#4539 by peterjc was merged Dec 15, 2023 Loading…
3 tasks done
Bump actions/setup-python from 4 to 5 dependencies Pull requests that update a dependency file
#4535 by dependabot bot was merged Dec 12, 2023 Loading…
Bio.Align sam phred scores
#4534 by mdehoon was merged Dec 10, 2023 Loading…
3 tasks done
Deprecate print_info_content
#4533 by mdehoon was merged Dec 10, 2023 Loading…
3 tasks done
Deprecate information_content and ic_vector in AlignInfo
#4531 by mdehoon was merged Dec 8, 2023 Loading…
3 tasks done
Deprecate replacement_dictionary
#4529 by mdehoon was merged Dec 6, 2023 Loading…
3 tasks done
Fix for #4527
#4528 by mdehoon was merged Dec 6, 2023 Loading…
3 tasks done
Parse origin-spanning locations containing the entire sequence
#4526 by manulera was merged Dec 6, 2023 Loading…
3 tasks done
Deprecate PSSM in Bio.Align.AlignInfo
#4523 by mdehoon was merged Dec 6, 2023 Loading…
3 tasks done
Deprecating Bio.MarkovModel
#4522 by mdehoon was merged Dec 3, 2023 Loading…
3 tasks done
Application deprecated
#4520 by mdehoon was merged Dec 1, 2023 Loading…
3 tasks done
deprecate Bio.MaxEntropy
#4518 by mdehoon was merged Nov 29, 2023 Loading…
3 tasks done
deprecate Bio.NaiveBayes
#4517 by mdehoon was merged Nov 29, 2023 Loading…
3 tasks done
remove references to blast-text from Bio.SearchIO
#4515 by mdehoon was merged Nov 28, 2023 Loading…
3 tasks done
update deprecation warning in Bio.Nexus.Nexus
#4514 by mdehoon was merged Nov 27, 2023 Loading…
3 tasks done
Bio.Align format with target on reverse strand
#4513 by mdehoon was merged Nov 26, 2023 Loading…
3 tasks done
Remove the deprecated Bio.PDB.QCPSuperimposer module
#4511 by mdehoon was merged Nov 27, 2023 Loading…
3 tasks done
Remove deprecated code from Bio.Align
#4510 by mdehoon was merged Nov 25, 2023 Loading…
3 tasks done
Remove deprecated functions one_to_three, three_to_one
#4508 by mdehoon was merged Nov 25, 2023 Loading…
3 tasks done
In chain files, print score as integer if possible
#4507 by mdehoon was merged Nov 24, 2023 Loading…
3 tasks done
ProTip! Updated in the last three days: updated:>2025-11-07.