NAME
Bio::AssemblyImprovement::FillGaps::GapFiller::Main - Run a single iteration of gapfiller
VERSION
version 1.160490
SYNOPSIS
Run a single iteration of gapfiller.
use Bio::AssemblyImprovement::FillGaps::GapFiller::Main;
my $config_file_obj = Bio::AssemblyImprovement::Scaffold::SSpace::Main->new(
input_files => ['abc_1.fastq', 'abc_2.fastq'],
input_assembly => 'contigs.fa'
insert_size => 250,
merge_size => 5,
threads => 2,
gap_filler_exec => '/path/to/SSPACE.pl',
_output_prefix => 'gapfilled'
)->run;
METHODS
run
Iteratively run gapfiller.
SEE ALSO
AUTHOR
Andrew J. Page <ap13@sanger.ac.uk>
COPYRIGHT AND LICENSE
This software is Copyright (c) 2012 by Wellcome Trust Sanger Institute.
This is free software, licensed under:
The GNU General Public License, Version 3, June 2007