Issues

• HomopolyPairHMM opens a gap in x with prob_gap_y (and vice versa), unlike PairHMM

  rust-bio/rust-bio#702 · Filter by author Adelagric opened on Sep 30, 2026

• PairHMM: gap extensions emit no base, are closed with the wrong probability, and banded mode keeps stale cells

  rust-bio/rust-bio#700 · Filter by author Adelagric opened on Sep 30, 2026

• ModelInstance::expected_value() weights by raw log-probability instead of normalized probability

  rust-bio/rust-bio#686 · Filter by author qvdx opened on Jul 29, 2026
  2

• Interval trees with inclusive interval

  rust-bio/rust-bio#682 · Filter by author lightdiscord opened on Jul 19, 2026

• poa::Aligner silently ignores Scoring::gap_extend (uses linear, not affine, gap penalty)

  rust-bio/rust-bio#677 · Filter by author wdecoster opened on Jun 23, 2026
  1

• --features phylogeny does not compile: two incompatible petgraph versions

  rust-bio/rust-bio#673 · Filter by author Adelagric opened on Jun 10, 2026
  1

• Question: Get all k-mers present in FM-Index

  rust-bio/rust-bio#653 · Filter by author Adamtaranto opened on Feb 19, 2026

• Feature Request: Providing UCSC Style Binning Facility Through the Crate

  rust-bio/rust-bio#647 · Filter by author rohan-ibn-tariq opened on Oct 30, 2025

• Feature request: Provide a on-disk matrix

  rust-bio/rust-bio#637 · Filter by author Yunuuuu opened on Apr 13, 2025
  1

• Are query sequence matches with the Myers bit-parallel method "canonical"?

  rust-bio/rust-bio#636 · Filter by author nrminor opened on Apr 10, 2025
  2

• Request: find_all should return all possible positions, not just all possible end positions

  rust-bio/rust-bio#628 · Filter by author traversc opened on Feb 27, 2025
  1

• Support EDNAFULL and f32 gap scoring.

  rust-bio/rust-bio#619 · Filter by author rLannes opened on Feb 18, 2025

• update to newest ndarray

  rust-bio/rust-bio#612 · Filter by author jianshu93 opened on Dec 21, 2024
  1

• Allow record.id() to get the first field before the first "|" instead of white space

  rust-bio/rust-bio#609 · Filter by author dawnmy opened on Dec 7, 2024

• Consider publishing intervaltree/datastructures implementation as a standalone crate

  rust-bio/rust-bio#607 · Filter by author derekleverenz opened on Oct 8, 2024
  1

• ❔ [Question]: Has anyone started wrapping a Python package around rust-bio?

  rust-bio/rust-bio#592 · Filter by author galenseilis opened on Jun 30, 2024

• Integration of PDBTBX

  rust-bio/rust-bio#589 · Filter by author OWissett opened on May 15, 2024

• Question : how to get all the elements of Dbxref

  rust-bio/rust-bio#574 · Filter by author simonpenel opened on Feb 14, 2024

• POA method to get aligned sequences with gaps back?

  rust-bio/rust-bio#571 · Filter by author davidlougheed opened on Feb 7, 2024
  3

• POA end gap/semi-global alignment

  rust-bio/rust-bio#568 · Filter by author ctsa opened on Jan 2, 2024
  7

• Update statrs version to 0.16 to avoid future rust incompatibility

  rust-bio/rust-bio#559 · Filter by author robinpaul85 opened on Oct 24, 2023

• Coverage CI test failing due to compiler bug (being addressed upstream)

  rust-bio/rust-bio#543 · Filter by author dlaehnemann opened on Jul 11, 2023
  1

• [Feature Request] Add Transcription & Translation capabilities

  rust-bio/rust-bio#526 · Filter by author Cardosaum opened on Jun 12, 2023

• DOC: public fn alignment::sparse::expand_kmer_matches not documented

  rust-bio/rust-bio#494 · Filter by author corneliusroemer opened on Jul 29, 2022

• FEAT: Support unicode strings, not just byte sequences

  rust-bio/rust-bio#492 · Filter by author NickCrews opened on Jul 15, 2022