Science::Bioinformatics::Genomics

fuzzyfold's secondary structure representations.

fuzzyfold's stochastic secondary structure simulations.

fuzzyfold's nearest neighbor free energy evaluations.

Nucleic acid secondary structure kinetics.

Rust implementation of strobemers

Rust bindings for the digest library

Automatically generated FFI definitions for abPOA

Rust bindings for abPOA: Adaptive Banded POA

Library for working with nucleotide and amino acid sequences

Save and load common biology file formats

VCF manipulation based on FORGe ranking

Microbiology friendly bioinformatics Rust functions

DNA, RNA, and amino acid sequence types and functions

Microbiology friendly bioinformatics Rust functions

Rust-powered BAM depth extraction with Python bindings

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

Principal component computation using SVD and covariance matrix trick

Pure‑Rust port of ntHash

A CLI tool for performing PCA on genomic data from VCF files.

CLI to generate FASTA file statistics (masking, GC content, etc.).

Convert an amino acid alignment into a nucleotide alignment.

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

Microbiology friendly bioinformatics Rust functions

Rust implementation of R/rrBLUP package for mixed model analysis

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

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

Microbiology friendly bioinformatics Rust functions

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).

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

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

A fast and memory-efficient FASTX PCR deduplication tool

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

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

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

Performance critical tools for genomic interval analysis.

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

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

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

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

Deterministic spatial transcriptomics IO primitives for Kira.

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

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

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

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

Python bindings for microBioRust Microbiology friendly bioinformatics Rust functions

High-throughput, extensible SAM/BAM pileup generation library

CLI program to generate varying pileup-derived output formats for SAM and BAM

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

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

The fast, reliable multitool of FASTQ processing