====== bcftools ======
BCFtools implements utilities for variant calling (in conjunction with SAMtools) and manipulating VCF and BCF files. The program is intended to replace the Perl-based tools from vcftools.

===== Information =====

  * Latest Version: 1.8
  * Added: September, 2015
  * Updated: June, 2018
  * Link: https://samtools.github.io/bcftools

===== Usage =====

See versions of bcftools which are available:
<code>$ module avail bcftools</code>

Load one version into your environment:
<code>$ module load bcftools/1.8</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>$ cd /tmp
$ wget https://github.com/samtools/bcftools/releases/download/1.8/bcftools-1.8.tar.bz2
$ tar xf bcftools-1.8.tar.bz2
$ cd bcftools-1.8
$ ./configure --prefix=/export/apps/bcftools/1.8 --with-htslib=/export/apps/htslib/1.8
$ make
$ sudo mkdir /export/apps/bcftools/1.8
$ sudo chown -R aorth:aorth /export/apps/bcftools/1.8
$ make install
$ sudo chown -R root:root /export/apps/bcftools/1.8</code>

This links bcftools against a system-wide installation of htslib/1.8.