Alternatives and similar repositories for htslib:

Users that are interested in htslib are comparing it to the libraries listed below

• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆952Updated 2 weeks ago
• samtools / bcftools
  This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.gith…
  ☆696Updated this week
• BenLangmead / bowtie2
  A fast and sensitive gapped read aligner
  ☆690Updated last month
• samtools / samtools
  Tools (written in C using htslib) for manipulating next-generation sequencing data
  ☆1,670Updated this week
• samtools / hts-specs
  Specifications of SAM/BAM and related high-throughput sequencing file formats
  ☆667Updated this week
• bwa-mem2 / bwa-mem2
  The next version of bwa-mem
  ☆731Updated 5 months ago
• vcflib / vcflib
  C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings
  ☆631Updated 2 months ago
• freebayes / freebayes
  Bayesian haplotype-based genetic polymorphism discovery and genotyping.
  ☆801Updated 7 months ago
• igvteam / igv
  Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
  ☆654Updated this week
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆491Updated 2 months ago
• biod / sambamba
  Tools for working with SAM/BAM data
  ☆577Updated last month
• Illumina / hap.py
  Haplotype VCF comparison tools
  ☆422Updated last year
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆491Updated this week
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆466Updated this week
• lh3 / bioawk
  BWK awk modified for biological data
  ☆599Updated 2 years ago
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆469Updated last year
• gmarcais / Jellyfish
  A fast multi-threaded k-mer counter
  ☆482Updated 10 months ago
• pysam-developers / pysam
  Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…
  ☆802Updated this week
• marbl / canu
  A single molecule sequence assembler for genomes large and small.
  ☆667Updated this week
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆402Updated 3 weeks ago
• macs3-project / MACS
  MACS -- Model-based Analysis of ChIP-Seq
  ☆718Updated 2 months ago
• pezmaster31 / bamtools
  C++ API & command-line toolkit for working with BAM data
  ☆421Updated 6 months ago
• rrwick / Bandage
  a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
  ☆599Updated 2 years ago
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆455Updated 2 weeks ago
• brentp / mosdepth
  fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
  ☆712Updated last week
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,257Updated this week
• BenLangmead / bowtie
  An ultrafast memory-efficient short read aligner
  ☆261Updated 2 years ago
• lh3 / seqtk
  Toolkit for processing sequences in FASTA/Q formats
  ☆1,417Updated 5 months ago
• nf-core / sarek
  Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
  ☆419Updated this week
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆845Updated 5 months ago