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Search results for rust bioinformatics
bioinformatics
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rust
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73 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.
Sourmash
⭐
431
Quickly search, compare, and analyze genomic and metagenomic data sets.
Noodles
⭐
384
Bioinformatics I/O libraries in Rust
Sage
⭐
173
Proteomics search & quantification so fast that it feels like magic
Rasusa
⭐
156
Randomly subsample sequencing reads to a specified coverage
Best
⭐
113
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.
Skani
⭐
101
Fast, robust ANI and aligned fraction for metagenomic genomes and contigs.
Perbase
⭐
100
Per-base per-nucleotide depth analysis
Fqgrep
⭐
75
Grep for FASTQ files
Telomeric Identifier
⭐
73
Identify and find telomeres, or telomeric repeats in a genome.
Ggcat
⭐
60
Compacted and colored de Bruijn graph construction and querying
Yacrd
⭐
59
Yet Another Chimeric Read Detector
Fasten
⭐
57
👷 Fasten toolkit, for streaming operations on fastq files
Transanno
⭐
54
accurate LiftOver tool for new genome assemblies
Fq
⭐
54
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
Sequence_align
⭐
39
Efficient implementations of Needleman-Wunsch and other sequence alignment algorithms written in Rust with Python bindings via PyO3.
Rustybam
⭐
38
bioinformatics toolkit in rust
Htsget Rs
⭐
36
Rust htsget server
Fqtk
⭐
35
Fast FASTQ sample demultiplexing in Rust.
Sketchy
⭐
35
Genomic neighbor typing of bacterial pathogens using MinHash 🐀
Ska.rust
⭐
35
Split k-mer analysis – version 2
Oxbow
⭐
32
Read specialized NGS formats as data frames in R, Python, and more.
Lightmotif
⭐
28
A lightweight platform-accelerated library for biological motif scanning using position weight matrices.
Faster
⭐
28
A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust
Metheor
⭐
26
☄️ Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments
Krust
⭐
26
counts k-mers, written in rust
Ggetrs
⭐
25
Efficient querying of biological databases
Mudskipper
⭐
25
A tool for projecting genomic alignments to transcriptomic coordinates
Guide Counter
⭐
22
A better, faster way to count guides in CRISPR screens.
Exon
⭐
20
Exon is an OLAP query engine specifically for biology and life science applications.
Vircov
⭐
18
Viral genome coverage evaluation for metagenomic diagnostics 🩸
Nthash
⭐
17
ntHash implementation in Rust
Drprg
⭐
17
Drug Resistance Prediction with Reference Graphs
Gtfsort
⭐
16
A chr/pos/feature GTF sorter that uses a lexicographically-based index ordering algorithm.
Nucleic Acid
⭐
15
BWT, FM-index and bits vector for analyzing DNA sequence data.
Vcf Rs
⭐
15
Rust implmentation of VCF parser
Sabreur
⭐
14
fast, reliable and handy demultiplexing tool for fastx files
Lightdock Rust
⭐
13
A Rust implementation of the LightDock macromolecular docking software
S3 Rust Htslib Bam
⭐
13
AWS lambda S3 + rust-htslib: A serverless bioinformatics example
Pyskani
⭐
13
PyO3 bindings and Python interface to skani, a method for fast fast genomic identity calculation using sparse chaining.
Entrez Rs
⭐
12
A Rust wrapper around the Entrez API. Helps you access the Entrez API using idiomatic Rust. It also provides tools to parse the XML results from Entrez.
Skc
⭐
12
Shared k-mer content between two genomes
Segul
⭐
11
An ultrafast and memory efficient tool for phylogenomics
Sigalign
⭐
10
A Similarity-Guided Alignment Algorithm
Psdm
⭐
10
Compute a pairwise SNP distance matrix from one or two alignment(s)
Fraggenescanrs
⭐
10
Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
Xgt
⭐
9
Efficient and fast querying and parsing of GTDB's data
Bgzip Rs
⭐
9
bgzip support for Rust
Patoz
⭐
8
Protein Data Bank (pdb) file parser
Scrubby
⭐
7
Background depletion/extraction using k-mer and/or alignment methods 🐼
Rs Vgaligner
⭐
7
Rust implementation of ekg's dozyg
Syn Zeug
⭐
7
A modern toolbox for synthetic biology
Sourmash Rust
⭐
7
Rust implementation of sourmash core functionality
Rs_demultiplex
⭐
7
Simple demultiplexing of FASTQ, one oligo (barcode) at a time
Uniprot.rs
⭐
6
Rust data structures and parser for the Uniprot database(s).
Rs Abpoa
⭐
6
Rust bindings for the abPOA partial order aligner
Nohuman
⭐
6
Remove human reads from a sequencing run
Rust_sbml
⭐
6
SBML parser + bindings to python
Rumi
⭐
6
Rust UMI Directional Adjacency Deduplicator
Bioshell
⭐
5
Rust package for structure biology, bioinformatics and molecular modeling
Needletail
⭐
5
Fast k-mer methods in Rust
Dima
⭐
5
A command-line tool that analyses the diversity and motifs of protein/nucleotide sequences.
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).
Cnvetti
⭐
5
🎉 CNVetti – robust, efficient, and versatile clinical CNV calling from HTS data
Bed2gff
⭐
5
BED-to-GFF3 converter that runs in parallel
Rnapkin
⭐
5
drawing RNA secondary structure with style; instantly
Slow5 Rs
⭐
5
Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output
Bionitio Rust
⭐
5
Demonstrating best practices for bioinformatics command line tools
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