This script is designed to work on a Linux-based high performance computing (HPC) cluster, as used by most genomic centers. It will also work on a Mac or Linux based computer. The installation instructions are designed for installation on a HPC cluster with the assumption that the user does not have route access.
Dependencies
To use the identity.pl script you will need to install the following:
- Samtools
- BLAT
- Perl module: Bio::DB::Sam
- Perl module: Parallel::ForkManager
To install these dependencies see these links:
Installation
For the identity script to work it simply needs to be placed in a directory along with a list of SNPs for use in making SNP barcodes. This file is called 'SNP_list_all.txt' and can be downloaded here:
Testing identity.pl
To check that identity.pl is working use this command:
perl identity.pl