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Pull requests: biopython/biopython

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Pull requests list

Edits to allow manual setting of Entrez's cache path.
#4734 opened May 21, 2024 by meridiajane Loading…
3 tasks done
1
5
Added 'U' to non-ambiguous nucleotides to calculate gc_fraction
#4727 opened May 13, 2024 by Lucandia Loading…
3 tasks done
1
1
Add BinaryCIF parser
#4707 opened Apr 23, 2024 by Will-Tyler Loading…
3 tasks done
1
32
Python 3.13: Replace deprecated PyEval_CallObject()
#4706 opened Apr 19, 2024 by penguinpee Loading…
7
Improve CE Align
#4695 opened Apr 10, 2024 by Will-Tyler Loading…
3 tasks done
5
Add support for reading PFM from Cys2His2 Zinc Finger Proteins PWM Predictor.
#4693 opened Apr 8, 2024 by ghuls Loading…
3 tasks done
2
Updating REBASE parser on Restriction Enzyme Dictionary creation script
#4685 opened Mar 30, 2024 by Rolando-at-Arzeda • Draft
3 tasks done
11
Apply isort (forcing single lines, not sorting by type) via ruff
#4662 opened Mar 14, 2024 by peterjc Loading…
3 tasks done
15
Feat/add bgzf typing
#4654 opened Mar 7, 2024 by bzoracler • Draft
3 tasks done
15
SSBond parsing addition - 2nd attempt
#4650 opened Mar 5, 2024 by suchanek Loading…
1 task
9
Fix _assign_element to deal with 4 characters atom with last number.
#4645 opened Mar 3, 2024 by eunos-1128 Loading…
3 tasks done
1
2
Fix inconsistent restriction digest cutting behaviour
#4638 opened Feb 27, 2024 by manulera Loading…
3 tasks done
1
10
Add method to resolve polytomies in Phylo.BaseTree
#4634 opened Feb 23, 2024 by kbseah Loading…
3 tasks done
2
Update modules.ent
#4628 opened Feb 13, 2024 by eltociear Loading…
2 of 3 tasks
1
Preserve branch length in Phylo.TreeMixin.prune if keep_root_length=True
#4601 opened Jan 23, 2024 by michaelfm1211 Loading…
3 tasks done
1
7
Support escaped quotes in Newick trees
#4560 opened Dec 31, 2023 by michaelfm1211 Loading…
3 tasks done
2
7
Allow qblast to accept lists of organisms to include/exclude
#4516 opened Nov 28, 2023 by netogallo Loading…
5
Check sorting of CONTRIB.rst vis pre-commit
#4478 opened Oct 31, 2023 by peterjc Loading…
3 tasks done
2
Non english months in pdb headers 4449
#4450 opened Sep 20, 2023 by exs-gbartlett Loading…
2 tasks done
1
13
bgzf: add utf-8 support
#4436 opened Sep 4, 2023 by ikravets Loading…
3 tasks done
1
7
Mvisani patch 1
#4433 opened Aug 26, 2023 by mvisani Loading…
3 tasks done
1
File.as_handle_and_flag
#4410 opened Aug 11, 2023 by speleo3 Loading…
3 tasks done
11
No insertion codes with auth_residues=False
#4390 opened Jul 27, 2023 by speleo3 Loading…
3 tasks done
1
Re-enable MYSQL in GitHub Actions testing
Testing
#4299 opened May 9, 2023 by peterjc Loading…
3 tasks done
6
SeqIO parse side effect remove
#4280 opened Apr 10, 2023 by BabaYaga1221 Loading…
3 tasks done
30
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