Science::Bioinformatics

Coordinate-sorted index (CSI) format reader and writer

FASTA format reader and writer

Bioinformatics I/O libraries

Sequence Alignment/Map (SAM) format reader and writer

Tabix (TBI) format reader and writer

Variant Call Format (VCF) reader and writer

Binary Alignment/Map (BAM) format reader and writer

BED (Browser Extensible Data) reader and writer

Gene Transfer Format (GTF) reader and writer

Binary Call Format (BCF) reader and writer

Shared utilities when working with noodles

CRAM format reader and writer

Generic Feature Format (GFF) reader and writer

noodles support utilities

FASTQ format reader and writer

Constructing and iterating packed DNA sequences using SIMD

DNA and RNA sequence types and functions

A refget client

An htsget client

A SIMD-accelerated library to compute random minimizers

Microbiology friendly bioinformatics Rust functions

A library for efficient nucleotide sequence manipulation using 2-bit and 4-bit encodings

Performance critical tools for genomic interval analysis.

fuzzyfold's nearest neighbor free energy evaluations.

Fast antibody and T-cell receptor numbering in Rust and Python

Fast gradient calculation of the Felsenstein algorithm with respect to the rate matrix

fuzzyfold's stochastic secondary structure simulations.

fuzzyfold's secondary structure representations.

A lightweight platform-accelerated library for biological motif scanning using position weight matrices.

Molecular dynamics

A high efficiency binary format for sequencing data

Nucleic acid secondary structure kinetics.

A library for converting alevin-fry output to the AnnData format

Parser for Gene Ontology Consortium GO-CAM files

A viewer of multiple sequence alignments, with a text user interface

PyO3 bindings and Python interface to the lightmotif crate.

Random access to indexed fasta using a mmapped file

FM-index library with slice view architecture for efficient text indexing and pattern matching

A command-line tool for interacting with BINSEQ file formats.

A type-safe Nightscout client for Rust, aiming to simplify the interactions with the confusing Nightscout API.

Deterministic single-cell input reader stack for MTX/H5AD/BD Rhapsody in Kira tools.

A library for converting alevin-fry output to the AnnData format

A library for OME-Zarr (previously OME-NGFF) metadata

Performance critical tools for genomic interval analysis. This is the CLI

A SIMD-accelerated library to compute hashes of DNA sequences

Python bindings for microBioRust Microbiology friendly bioinformatics Rust functions

Ultra high-throughput processing of 10x-flex single-cell sequencing data

A pure Rust library and CLI for the automated repair, preparation, and topology construction of biological macromolecules.

Shared deterministic binary cache reader/writer for Kira single-cell pipelines (kira-organelle.bin and expr.bin).

Pure Rust HMMER3-compatible profile HMM search engine for protein sequences.