User Tools

Site Tools


htslib-software

Table of Contents

htslib

htslib is an implementation of a unified C library for accessing common file formats, such as SAM, CRAM and VCF, used for high-throughput sequencing data, and is the core library used by samtools and bcftools

Information

Usage

See versions of htslib which are available

$ module avail htslib

Load and run htslib

$ module load htslib/1.6

Installation

Notes from the sysadmin during installation:

$ wget https://github.com/samtools/htslib/releases/download/1.6/htslib-1.6.tar.bz2
$ tar xf htslib-1.6.tar.bz2
$ cd htslib-1.6
$ sudo mkdir /export/apps/htslib/1.6
$ sudo chown aorth /export/apps/htslib/1.6
$ scl enable devtoolset-4 bash
$ ./configure --enable-plugins --enable-libcurl --prefix=/export/apps/htslib/1.6
$ make
$ make install
$ sudo chown -R root:root /export/apps/htslib/1.6
htslib-software.txt · Last modified: 2017/10/28 17:15 by aorth