Science::Bioinformatics::Genomics

A nightly library for viral genomics

Microbiology friendly bioinformatics Rust functions

fuzzyfold's secondary structure representations.

DNA, RNA, and amino acid sequence types and functions

Gene-field extraction and deterministic signal transforms for spatial transcriptomics.

Performance critical tools for genomic interval analysis.

fuzzyfold's stochastic secondary structure simulations.

fuzzyfold's nearest neighbor free energy evaluations.

Save and load common biology file formats

A fast and memory-efficient FASTX PCR deduplication tool

Deterministic spatial transcriptomics IO primitives for Kira.

Deterministic spatial math and contour primitives for transcriptomics 3D pipelines.

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

Deterministic 3D mesh, contour, and export primitives for spatial omics fields.

Nucleic acid secondary structure kinetics.

Deterministic, explainable secretion-state QC for single-cell expression data.

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

Deterministic, explainable autophagy/lysosome dependency QC for single-cell expression data.

Deterministic, explainable ligand-receptor microenvironment interaction scoring for single-cell expression data.

Deterministic orchestrator for spatial transcriptomics: IO, field transforms, core math, and 3D export.

Bit packed and well-typed biological sequences

Library for working with nucleotide and amino acid sequences

Command-line interface for deterministic spatial 3D mesh and contour export.

Python bindings for microBioRust Microbiology friendly bioinformatics Rust functions

Interactive GPU viewer for spatial 3D meshes, contours, and vector fields.

Fast genome statistics: length, GC, N/L, 6-frame and FragGeneScan codon density, plus Castro U50 assembly metrics.

Principal component computation using SVD and covariance matrix trick

Pure‑Rust port of ntHash

Deterministic ribosome and translation-state quality control for single-cell RNA-seq.

Reproducible bio-data manager with a project-local store and a shared global cache. kira-bm it's like npm/cargo/pip for bioinformatics.

Configuration data model for fastqrab: file formats, compression, and read segments

The fast, reliable multitool of FASTQ processing

Low-level DNA primitives for fastqrab: sequence/quality handling, segments, and approximate matching

Microbiology friendly bioinformatics Rust functions

FASTQ/FASTA/BAM input and output with gzip/zstd compression for fastqrab

Extracts transcript sequences and gene maps from genome FASTA files using GFF3 annotations.

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

Pure-Rust BAM/VCF/BCF depth, pileup, variants and stats with Python bindings — Windows / Linux / macOS native. CRAM is experimental (header reading; record decode is panic-guarded and returns a Python error on unsupported codecs).

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

Pipeline building blocks for fastqrab: read transformations, filters, reports, and demultiplexing

Automatically generated FFI definitions for abPOA

Microbiology friendly bioinformatics Rust functions

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

The fast, reliable multitool of FASTQ processing

Rust implementation of strobemers

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

Rust bindings for the digest library

Rust-powered BAM depth extraction with Python bindings

Rust implementation of R/rrBLUP package for mixed model analysis