Ecosyste.ms: Issues

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GitHub / rust-bio/rust-bio issues and pull requests

#499 - chore: widen range on statrs

Pull Request - State: closed - Opened by adam-azarchs almost 2 years ago - 1 comment

#498 - chore: release 1.0.0

Pull Request - State: closed - Opened by github-actions[bot] almost 2 years ago - 4 comments
Labels: autorelease: pending

#497 - chore: Fix MSRV build.

Pull Request - State: closed - Opened by adam-azarchs almost 2 years ago - 1 comment

#496 - chore: Fix lints from clippy 1.63.

Pull Request - State: closed - Opened by adam-azarchs almost 2 years ago - 1 comment

#496 - chore: Fix lints from clippy 1.63.

Pull Request - State: closed - Opened by adam-azarchs almost 2 years ago - 1 comment

#493 - DOC: Recommended crate twoway is deprecated

Issue - State: closed - Opened by corneliusroemer almost 2 years ago

#492 - FEAT: Support unicode strings, not just byte sequences

Issue - State: open - Opened by NickCrews almost 2 years ago

#490 - feat: Write fasta with fix line width

Pull Request - State: open - Opened by openpaul about 2 years ago - 4 comments

#489 - chore: closes #294: add time/space documentation to smallints.rs

Pull Request - State: closed - Opened by SDeans0 about 2 years ago - 2 comments

#488 - feat: banded partial order alignments

Pull Request - State: closed - Opened by wheaton5 about 2 years ago

#488 - Banded poa

Pull Request - State: open - Opened by wheaton5 about 2 years ago

#487 - chore: release 0.41.0

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 1 comment
Labels: autorelease: tagged

#485 - chore: release 0.40.0

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 2 comments
Labels: autorelease: tagged

#485 - chore: release 0.40.0

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 2 comments
Labels: autorelease: tagged

#484 - fix: also require BaseSpecificHopParameters when building a new HPHMM

Pull Request - State: closed - Opened by tedil over 2 years ago - 1 comment

#483 - fix: pub use BaseSpecificHopParameters

Pull Request - State: closed - Opened by tedil over 2 years ago - 1 comment

#482 - Pub use base specific hop parameters

Pull Request - State: closed - Opened by tedil over 2 years ago - 1 comment

#481 - chore: release 1.0.0

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago
Labels: autorelease: pending

#480 - feat!: base specific hop parameters in homopoly-pair-hmm

Pull Request - State: closed - Opened by tedil over 2 years ago - 1 comment

#479 - chore: release 0.39.2

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 1 comment
Labels: autorelease: tagged

#478 - fix: overflow in `qgrams` for k=32

Pull Request - State: closed - Opened by RagnarGrootKoerkamp over 2 years ago - 6 comments

#477 - Error on cargo build

Issue - State: closed - Opened by bioibogithub over 2 years ago - 2 comments

#476 - docs: reorder CHANGELOG and fix headers

Pull Request - State: closed - Opened by dcroote over 2 years ago - 1 comment

#475 - chore: release 0.39.1

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 1 comment
Labels: autorelease: tagged

#474 - fix: added code to ignore commented lines in a bed file

Pull Request - State: closed - Opened by mrvollger over 2 years ago - 6 comments

#473 - bed::Reader does not respect comment lines

Issue - State: closed - Opened by mrvollger over 2 years ago - 1 comment

#473 - bed::Reader does not respect comment lines

Issue - State: closed - Opened by mrvollger over 2 years ago - 1 comment

#472 - FASTA/Q sequence record check insufficient

Issue - State: open - Opened by ebioman over 2 years ago - 1 comment

#471 - fix: Make QGramIndex use less memory; add docs; fix bug

Pull Request - State: closed - Opened by RagnarGrootKoerkamp over 2 years ago - 2 comments

#469 - feat: Add IO for DistanceMatrix in Phylip format

Pull Request - State: open - Opened by RagnarGrootKoerkamp over 2 years ago

#468 - feat: Add to_string method for Newick IO

Pull Request - State: open - Opened by RagnarGrootKoerkamp over 2 years ago - 1 comment

#468 - feat: Add to_string method for Newick IO

Pull Request - State: open - Opened by RagnarGrootKoerkamp over 2 years ago - 1 comment

#466 - test: fix compilation for fmindex benchmark.

Pull Request - State: closed - Opened by adam-azarchs over 2 years ago - 1 comment

#465 - chore: widen range for strum, remove fnv.

Pull Request - State: closed - Opened by adam-azarchs over 2 years ago - 1 comment

#464 - chore: Allow update of petgraph to 0.6.

Pull Request - State: closed - Opened by adam-azarchs over 2 years ago - 2 comments

#464 - chore: Allow update of petgraph to 0.6.

Pull Request - State: closed - Opened by adam-azarchs over 2 years ago - 2 comments

#463 - feat: allow iteration over posteriors in Bayesian model

Pull Request - State: open - Opened by johanneskoester over 2 years ago - 1 comment

#463 - feat: allow iteration over posteriors in Bayesian model

Pull Request - State: open - Opened by johanneskoester over 2 years ago - 1 comment

#462 - Expanding the bed record to bed12

Issue - State: open - Opened by mrvollger over 2 years ago

#461 - chore: Add minimum supported Rust version to README and CI

Pull Request - State: closed - Opened by luiz10x over 2 years ago - 1 comment

#460 - refactor: Using submodules as features

Pull Request - State: open - Opened by luiz10x over 2 years ago - 3 comments

#459 - Curious about reading 3 column bed file into IntervalTree

Issue - State: closed - Opened by jelber2 over 2 years ago - 6 comments

#458 - chore: release 0.39.0

Pull Request - State: closed - Opened by github-actions[bot] over 2 years ago - 1 comment
Labels: autorelease: tagged

#457 - feat: Backward search api

Pull Request - State: closed - Opened by rob-p over 2 years ago - 4 comments

#457 - feat: Backward search api

Pull Request - State: closed - Opened by rob-p over 2 years ago - 4 comments

#456 - refactor: Apply clippy lints

Pull Request - State: closed - Opened by fxwiegand over 2 years ago - 1 comment
Labels: clippy

#456 - refactor: Apply clippy lints

Pull Request - State: closed - Opened by fxwiegand over 2 years ago - 1 comment
Labels: clippy

#454 - Potentially incorrect positions from fm-index backward_search

Issue - State: closed - Opened by rob-p over 2 years ago - 13 comments

#452 - Why so many stale branches ?

Issue - State: open - Opened by stormasm almost 3 years ago - 2 comments

#451 - chore: release 0.38.0

Pull Request - State: closed - Opened by github-actions[bot] almost 3 years ago - 1 comment
Labels: autorelease: tagged

#445 - chore: Update dependencies and clean up crate archive.

Pull Request - State: closed - Opened by adam-azarchs almost 3 years ago

#444 - feat: adds iupac amino acid alpha

Pull Request - State: closed - Opened by tshauck almost 3 years ago

#443 - Partial order alignment gives incorrect graph when the first position is a mismatch

Issue - State: closed - Opened by arcresu almost 3 years ago - 1 comment

#442 - feat: Generic record

Pull Request - State: open - Opened by lskatz almost 3 years ago - 12 comments

#439 - chore: Widen dependency version ranges.

Pull Request - State: closed - Opened by adam-azarchs almost 3 years ago - 1 comment

#439 - chore: Widen dependency version ranges.

Pull Request - State: closed - Opened by adam-azarchs almost 3 years ago - 1 comment

#433 - feat: FASTA/FASTQ unification

Pull Request - State: open - Opened by morsecodist about 3 years ago - 14 comments

#429 - widen ndarray dependency and fix warning

Pull Request - State: open - Opened by DavidBJaffe about 3 years ago - 1 comment

#424 - allow gap penalties to be a function of position on reference

Pull Request - State: open - Opened by DavidBJaffe about 3 years ago - 1 comment

#404 - error[E0046]: not all trait items implemented, missing: `is_empty`

Issue - State: closed - Opened by simenbm over 3 years ago - 1 comment

#396 - Extension traits on Text/TextSlice for common biological sequence modifications

Pull Request - State: open - Opened by xyl012 over 3 years ago - 14 comments

#383 - Wrap comments

Pull Request - State: open - Opened by TianyiShi2001 over 3 years ago

#382 - Improve lib rs

Pull Request - State: open - Opened by TianyiShi2001 over 3 years ago
Labels: WIP

#381 - fix cargo doc warnings

Pull Request - State: closed - Opened by TianyiShi2001 over 3 years ago - 1 comment
Labels: Review and Merge

#381 - fix cargo doc warnings

Pull Request - State: closed - Opened by TianyiShi2001 over 3 years ago - 1 comment
Labels: Review and Merge

#379 - Reimplement the current alignment::Aligner without breaking API

Pull Request - State: open - Opened by TianyiShi2001 over 3 years ago - 4 comments
Labels: WIP

#378 - added BioFerris to rustdoc

Pull Request - State: closed - Opened by TianyiShi2001 over 3 years ago
Labels: documentation

#378 - added BioFerris to rustdoc

Pull Request - State: closed - Opened by TianyiShi2001 over 3 years ago
Labels: documentation

#366 - Implement the WFA algorithm

Issue - State: open - Opened by TianyiShi2001 almost 4 years ago - 6 comments
Labels: new feature

#342 - Restructure rust-bio to speedup compilation and reduce dependencies

Issue - State: open - Opened by natir almost 4 years ago - 24 comments

#338 - Quick fix floating point error in gcn_content

Pull Request - State: closed - Opened by tedil almost 4 years ago - 1 comment

#334 - Allow IntoIterator as input to qgram index.

Pull Request - State: closed - Opened by johanneskoester almost 4 years ago - 1 comment

#334 - Allow IntoIterator as input to qgram index.

Pull Request - State: closed - Opened by johanneskoester almost 4 years ago - 1 comment

#316 - stats::probs::cdf improve docs

Pull Request - State: closed - Opened by dlaehnemann almost 4 years ago - 1 comment

#307 - Fix doctests

Pull Request - State: closed - Opened by tedil almost 4 years ago - 1 comment

#294 - improve docs: `data_structures::smallints`

Issue - State: closed - Opened by dlaehnemann almost 4 years ago
Labels: documentation

#260 - Revert "Handle wrapped fastq files"

Pull Request - State: closed - Opened by johanneskoester over 4 years ago - 1 comment

#246 - example of getting the consensus of multiple sequences?

Issue - State: closed - Opened by dongweigogo over 4 years ago - 6 comments

#224 - Trait system for bayesian statistical modelling

Pull Request - State: closed - Opened by johanneskoester about 5 years ago - 1 comment

#197 - Interpolation table. Updated ordered_float dependency.

Pull Request - State: closed - Opened by johanneskoester over 5 years ago

#197 - Interpolation table. Updated ordered_float dependency.

Pull Request - State: closed - Opened by johanneskoester over 5 years ago

#116 - Make gff/gtf parser more robust by using regular expressions for attribute parsing.

Pull Request - State: closed - Opened by johanneskoester over 7 years ago - 5 comments

#112 - Switch to new serde compatible with stable rust.

Pull Request - State: closed - Opened by johanneskoester over 7 years ago - 1 comment

#84 - Use From instead of NumCast when integrating over logprobs.

Pull Request - State: closed - Opened by johanneskoester almost 8 years ago

#83 - Bayesian

Pull Request - State: closed - Opened by johanneskoester almost 8 years ago

#77 - Add CDF implementation.

Pull Request - State: closed - Opened by johanneskoester almost 8 years ago - 5 comments

#27 - Join the team!

Issue - State: closed - Opened by johanneskoester over 8 years ago - 88 comments

#3 - Roadmap / Todos

Issue - State: open - Opened by johanneskoester over 9 years ago - 68 comments