BioX::Map - map read to genome with bwa and soap
version 0.0.2
use BioX::Map; my $bm = BioX::Map->new( infile => "in.fastq", out_prefix => 'out', genome => 'ref.fa', );
This module aim to wrap bwa and soap, and statistic result
the fastq file
The dir that include fastq file. The priority is higher than infile
path of outfile which could include path
outdir of mapping result
index genome before mapping
set mismatch allowed in mapping
path of genome file
mapping software. Enum['bwa', 'soap']
path of bwa
path of soap
path of 2bwt-builder
process of mapping software
how many samples are processed parallel
check whether genome index exists
create genome index before mapping
wrap mapping software
process one or more samples
statis mapping result
Yan Xueqing <yanxueqing621@163.com>
This software is copyright (c) 2016 by Yan Xueqing.
This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.
To install BioX::Map, copy and paste the appropriate command in to your terminal.
cpanm
cpanm BioX::Map
CPAN shell
perl -MCPAN -e shell install BioX::Map
For more information on module installation, please visit the detailed CPAN module installation guide.