Bioinformatics Tools

Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files
Alternatives To Bioinformatics Tools
Project NameStarsDownloadsRepos Using ThisPackages Using ThisMost Recent CommitTotal ReleasesLatest ReleaseOpen IssuesLicenseLanguage
Deepvariant2,978
4 months ago8bsd-3-clausePython
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Gatk1,5762a month ago46March 16, 20231,299otherJava
Official code repository for GATK versions 4 and up
Hail905173 months ago146October 30, 2023211mitPython
Cloud-native genomic dataframes and batch computing
Ncbi Genome Download784269 months ago25July 28, 202338apache-2.0Python
Scripts to download genomes from the NCBI FTP servers
Jcvi650114 months ago97August 30, 202341bsd-2-clausePython
Python library to facilitate genome assembly, annotation, and comparative genomics
Bowtie2594
3 months ago143gpl-3.0C++
A fast and sensitive gapped read aligner
Nanopolish496
8 months ago60mitC++
Signal-level algorithms for MinION data
Sniffles479
3 months ago8July 27, 202395mitPython
Structural variation caller using third generation sequencing
Hifiasm443
3 months ago324mitC++
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
Megahit442
a year ago78gpl-3.0C++
Ultra-fast and memory-efficient (meta-)genome assembler
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