NAME fastQ_brew_Utilities - utilities for fastQ_brew =head2 SYNOPSIS use base 'Exporter'; use Cwd; use List::Util qw(min max sum);

DESCRIPTION This package provides Utility support to fastQ_brew

Support All contributions are welcome =head6 Reporting Bugs Report bugs to the fastQ_brew bug tracking system to help keep track of the bugs and their resolution. Bug reports can be submitted via the web: https://github.com/dohalloran/fastQ_brew/issues

calcgc Title : calcgc Usage : $Tm = calcgc( $read ); Function: calculates read GC% Returns : GC%

phred_calc Title : phred_calc Usage : $Tm = phred_calc( $read, $lib ); Function: calculates phred score for each read Returns : read phred score

prob_calc Title : prob_calc Usage : prob_calc( $read, $lib ); Function: calculates error probability for each read Returns : probability

adapter_check Title : adapter_check Usage : adapter_check( $read, $adapter, $mismatches ); Function: searches for matches that permit number of mismatches and removes macthes from reads Returns : fastQ file without adapters