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Can Bio.Blast.NCBIXML.parse read diamond xml outputs?

Status: Open.

#5027 In biopython/biopython;

· Tim-Kirkwood opened on Jul 9, 2025

Tree visualisation

Status: Open.

#5026 In biopython/biopython;

· iosonofabio opened on Jul 7, 2025

<code>Bio.PDB.Chain</code> cannot be indexed with <code>np.int64</code>

Status: Open.

#5017 In biopython/biopython;

· kamurani opened on Jun 20, 2025

SeqRecord.reverse_complement() edits parent sequence in place

Status: Open.

#5015 In biopython/biopython;

· manulera opened on Jun 18, 2025

UnboundLocalError: local variable 'consensus_letter' referenced before assignment

Status: Open.

#5000 In biopython/biopython;

· dgslos opened on May 22, 2025

Bio.codonalign.codonseq.cal_dn_ds Issue

Status: Open.

#4999 In biopython/biopython;

· BoxuanBobLi opened on May 21, 2025

sub_features are not being updated parsing a GFF

Status: Open.

#4995 In biopython/biopython;

· AgustinPardo opened on May 11, 2025

Origin-spanning features not being included when using SeqFeature.extract()

Status: Open.

#4989 In biopython/biopython;

· manulera opened on Apr 23, 2025

motifs degenerate_consensus functionality / bug

Status: Open.

#4988 In biopython/biopython;

· bmichanderson opened on Apr 23, 2025

Is there a reason cealign doesn't return best_alignment?

Status: Open.

#4987 In biopython/biopython;

· jsilbergDS opened on Apr 21, 2025

Blast.parse XML2 file AssertionErr

Status: Open.

#4978 In biopython/biopython;

· khuynh012 opened on Mar 22, 2025

SEQIO parsing failure on Genbank Feature/variation for inserts; but setting sequence length to zero escapes this with a warning

Status: Open.

#4969 In biopython/biopython;

· snowlizardz opened on Mar 11, 2025