htslib

Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point for more complex scripts

c bam-files sam htslib genomic-data-analysis vcf-files fastq-files sam-files cram-files

Updated Dec 11, 2020
C

lindenb / rbcf

Star

R Bindings for htslib/bcf

c bioinformatics r vcf htslib bcf

Updated Jul 23, 2021
C

wtsi-npg / bambi

Star

Process Illumina instrument data into SAM/BAM/CRAM files.

bam-files bioinformatics htslib illumina

Updated Jul 2, 2021
C

lindenb / x11hts

Star

X11 related utilities for hts

visualization bioinformatics hts x11 sam bam htslib cnv

Updated May 10, 2019
C++

lindenb / bcfselectgt

Star

VCF/Bcf genotypes filtering using htslib

bioinformatics filter vcf htslib bcf

Updated Nov 18, 2020
C

adamjorr / kbbq

Star

reference-free base quality score recalibration

bioinformatics genomics htslib fastq kmers

Updated Oct 16, 2020
C++

kojix2 / ruby-htslib

Sponsor Star

HTSlib high-throughput sequencing library for Ruby

ruby bioinformatics sam bam htslib

Updated Jul 23, 2021
Ruby

YuzukiTsuru / TTS-Tools

Star

Some useless thing for Speech Synthesis System

hmm hts speech-synthesis htslib htk

Updated Nov 21, 2018
C

innovate-invent / bampy

Star

Python implementation of htslib supporting BAM, SAM, and BGZF compression

hts sam bam htslib samtools bgzf bai

Updated Sep 15, 2018
Python

bio-crystal / htslib.cr

Star

HTSlib high-throughput sequencing library for Crystal

htslib crystal-bindings

Updated Jul 10, 2021
Crystal

hiruna72 / htslib

Star

[CMake build] C library for high-throughput sequencing data formats

android cmake armv7 htslib cross-compile armv8 android-cross-build

Updated Jan 15, 2020
C

lindenb / htsplusplus

Star

Select variants from VCF/BCF spaced by a distance 'd'.

c bioinformatics distance vcf variants htslib bcf

Updated Mar 17, 2021
C

Grelot / reserveBenefit--snpsdata_analysis

Star

Codes i wrote for the paper "genomic resources for Mediterranean fishes"

bash r genome container singularity python3 snp htslib bedtools samtools bwa-mem vcftools bcftools radseq reservebenefit

Updated Oct 30, 2020
Shell

dantaki / sv2bed

Star

Convert SV VCFs to BED, a wrapper for bcftools query

vcf htslib bcftools structural-variation

Updated Jul 20, 2019
Python

hiruna72 / samtools

Star

[CMake build] Tools (written in C using htslib) for manipulating next-generation sequencing data

android cmake armv7 htslib cross-compile armv8 samtools

Updated Jan 20, 2020
C

tt6746690 / htsget

Star

A server implementation of htsget protocol

htslib samtools htsget

Updated Aug 25, 2017
C++

CHRUdeLille / bcftools_containers

Star

bcftools singularity container

ngs next-generation-sequencing singularity vcf htslib singularity-containers vcftools bcftools singularity-hub

Updated Nov 8, 2018
Shell

aleighbrown / facets_snakemake

Star

Pipeline for running the FACETS copy number caller using Snakemake

snakemake pipeline cancer htslib facets copy-number

Updated Mar 15, 2019
R

sethbrin / cpp-htslib

Star

A wrapper of htslib

genomics cpp11 htslib

Updated May 2, 2017
C++

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