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55 search results found

Rust Bio ⭐ 1,428

This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.

Noodles ⭐ 384

Bioinformatics I/O libraries in Rust

Proteomics search & quantification so fast that it feels like magic

Bam Error Stats Tool (best): analysis of error types in aligned reads.

Block Aligner ⭐ 111

SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.

Fast, robust ANI and aligned fraction for metagenomic genomes and contigs.

Grep for FASTQ files

Telomeric Identifier ⭐ 73

Identify and find telomeres, or telomeric repeats in a genome.

Compacted and colored de Bruijn graph construction and querying

Yet Another Chimeric Read Detector

Command line utility for manipulating Illumina-generated FASTQ files.

Cute Nucleotides ⭐ 53

Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.

Gccontent Benchmark ⭐ 49

Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)

Minimap2 Rs ⭐ 46

Rust bindings to minimap2 library

Rust Lapper ⭐ 40

Rust implementation of a fast, easy, interval tree library nim-lapper

Rustybam ⭐ 38

bioinformatics toolkit in rust

Htsget Rs ⭐ 36

Rust htsget server

Ska.rust ⭐ 35

Split k-mer analysis – version 2

Fast FASTQ sample demultiplexing in Rust.

A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust

Lightmotif ⭐ 28

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

☄️ Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments

counts k-mers, written in rust

Mudskipper ⭐ 25

A tool for projecting genomic alignments to transcriptomic coordinates

Efficient querying of biological databases

Guide Counter ⭐ 22

A better, faster way to count guides in CRISPR screens.

Viral genome coverage evaluation for metagenomic diagnostics 🩸

Drug Resistance Prediction with Reference Graphs

A chr/pos/feature GTF sorter that uses a lexicographically-based index ordering algorithm.

Rust implmentation of VCF parser

fast, reliable and handy demultiplexing tool for fastx files

Lightdock Rust ⭐ 13

A Rust implementation of the LightDock macromolecular docking software

PyO3 bindings and Python interface to skani, a method for fast fast genomic identity calculation using sparse chaining.

Shared k-mer content between two genomes

An ultrafast and memory efficient tool for phylogenomics

Sigalign ⭐ 10

A Similarity-Guided Alignment Algorithm

Fraggenescanrs ⭐ 10

Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.

Compute a pairwise SNP distance matrix from one or two alignment(s)

Efficient and fast querying and parsing of GTDB's data

A modern toolbox for synthetic biology

Rust_sbml ⭐ 6

SBML parser + bindings to python

Rust bindings for the abPOA partial order aligner

Remove human reads from a sequencing run

Rust UMI Directional Adjacency Deduplicator

drawing RNA secondary structure with style; instantly

Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output

BED-to-GFF3 converter that runs in parallel

Prot Scriber ⭐ 5

Assigns short human readable descriptions to biological sequences or gene families using references. For this, prot-scriber consumes sequence similarity search results in tabular format (Blast or Diamond).

Bionitio Rust ⭐ 5

Demonstrating best practices for bioinformatics command line tools

Needletail ⭐ 5

Fast k-mer methods in Rust

A command-line tool that analyses the diversity and motifs of protein/nucleotide sequences.

🎉 CNVetti – robust, efficient, and versatile clinical CNV calling from HTS data

Rust package for structure biology, bioinformatics and molecular modeling

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