samtools by samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

updated at April 27, 2024, 3:44 a.m.

101 +0

1,549 +3

570 +1

mosdepth by brentp

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

updated at April 27, 2024, 2:04 a.m.

23 +0

655 +2

100 +0

mummer by mummer4

Mummer alignment tool

updated at April 26, 2024, 7:59 p.m.

20 -1

419 +4

108 +0

hail by hail-is

Cloud-native genomic dataframes and batch computing

updated at April 26, 2024, 7:20 p.m.

55 +0

934 -2

235 +1

telseq by zd1

A software for calculating telomere length

updated at April 26, 2024, 7:04 p.m.

9 +0

63 +1

26 +0

vcftools by vcftools

A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.

updated at April 26, 2024, 4:31 p.m.

32 +0

477 +2

147 +0

spades by ablab

SPAdes Genome Assembler

updated at April 26, 2024, 4:24 p.m.

31 +0

663 +5

131 +0

bioperl-live by bioperl

Core BioPerl 1.x code

updated at April 26, 2024, 3:29 p.m.

54 +0

289 +0

178 +1

prokka by tseemann

Rapid prokaryotic genome annotation

updated at April 26, 2024, 1:27 p.m.

43 +0

754 +4

216 +1

delly by dellytools

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

updated at April 26, 2024, 12:25 p.m.

34 +0

400 +1

135 +0

vcflib by vcflib

C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

updated at April 26, 2024, 11:58 a.m.

39 +0

596 +3

218 +1

seqkit by shenwei356

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

updated at April 26, 2024, 11:58 a.m.

27 +0

1,204 +3

156 +2

csvtk by shenwei356

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

updated at April 26, 2024, 10:44 a.m.

25 +0

955 +4

84 +0

oneliners by stephenturner

Useful bash one-liners for bioinformatics.

updated at April 26, 2024, 8:19 a.m.

157 +0

1,802 +2

511 +0

biopython by biopython

Official git repository for Biopython (originally converted from CVS)

updated at April 26, 2024, 7:53 a.m.

170 +0

4,169 +9

1,712 +1

bowtie2 by BenLangmead

A fast and sensitive gapped read aligner

updated at April 26, 2024, 6:07 a.m.

30 +0

619 +2

162 +0

common-workflow-language by common-workflow-language

Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

updated at April 26, 2024, 5:42 a.m.

112 +0

1,441 +1

199 +0

RSEM by deweylab

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

updated at April 26, 2024, 4:44 a.m.

22 -1

397 +2

118 +1

seqan3 by seqan

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

updated at April 26, 2024, 1:20 a.m.

24 +0

389 +2

80 +0

biojs by biojs

🔬A library of JavaScript components to represent biological data

updated at April 26, 2024, 1:11 a.m.

70 +0

484 +2

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