Science::Bioinformatics::Sequence Analysis

A nightly library for viral genomics

Microbiology friendly bioinformatics Rust functions

fuzzyfold's secondary structure representations.

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

DNA, RNA, and amino acid sequence types and functions

fuzzyfold's stochastic secondary structure simulations.

fuzzyfold's nearest neighbor free energy evaluations.

Save and load common biology file formats

Count the occurances of structured sequence reads and compare to an expected library

High-performance FASTQ reader and writer with mmap-first design. Supports plain, gzip, and BGZF inputs/outputs; optional multi-line parsing; explicit paired-end reading; sync and async APIs; optional `noodles-bgzf` interop.

View, edit, and explore multiple sequence alignments in your terminal

A fast and memory-efficient FASTX PCR deduplication tool

Bindings to the C library libsais for suffix array construction

Nucleic acid secondary structure kinetics.

Generate images of the Arecibo message with a user-provided population and genome size

Read conventional genomic file formats as data frames and more via Apache Arrow.

Unified short- and long-read sequence aligner written in Rust 2024. It combines minimap2-style minimizers and chaining with BWA-MEM2-style exact-match anchoring and output semantics. The goal is drop-in compatibility with bwa-mem pipelines while supporting long reads efficiently.

Raw bindings to the C library libsais for suffix array construction

A library to handle proteomic mass spectrometry data and match peptides to spectra.

FastQC-compatible QC tool written in Rust

Bit packed and well-typed biological sequences

Rust CLI for preprocessing single-cell RNA-seq count matrices.

Python bindings for microBioRust Microbiology friendly bioinformatics Rust functions

Pure‑Rust port of ntHash

A small and fast FM-Index implementation

Deterministic Rust CLI for MMseqs2-like approximate high-throughput sequence clustering/search workflows.

High-performance BAM/SAM/CRAM toolkit written in Rust 2024. Drop-in samtools-compatible CLI (view/sort/index/merge/markdup/flagstat) plus a library API for embedding directly into aligners and variant callers.

Microbiology friendly bioinformatics Rust functions

Rust tools (with Python bindings) for sequence analysis

A program that collapses CIGAR strings from SAM/BAM files into shorter human-readable string

A tool for generating sequence locators for HIV/SIV sequences, resembling the functionality of the LANL HIV-Locator tool.

CLI tool for physics-informed protein robustness and fragility analysis under environmental conditions (pH, oxidative stress, temperature)

High-performance Rust CLI to normalize molecular recorder outputs into the Cellular Event Log (CEL) format and build fast indices.

Rust bindings for abPOA: Adaptive Banded POA

An implementation of the SAIS algorithm for suffix array construction

Automatically generated FFI definitions for abPOA

fqkit: a simple and cross-platform program for fastq file manipulation

Microbiology friendly bioinformatics Rust functions

BAM/Mod BAM parsing and analysis tool with a single-molecule focus

Package to download NCBI genome data and metadata

Handle fragmentation of (complex) peptidoforms.

Rust implementation of strobemers

Align peptidoforms while with mass-based alignment.

Access the IMGT database from Rust

Core logic for handling massspectrometry in Rust.

Learn the properties of a FASTA sequence database and simulate sequences in a Markov process

Rust bindings for the digest library

Convert an amino acid alignment into a nucleotide alignment.

Microbiology friendly bioinformatics Rust functions