FastQFS

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### Generate plots
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perl FastQFS_V1.0.pl -plotting Yes -fw <Forward reads file> -rw <Reverse reads file> -prefix <Prefix for the output files> -sc <Scoring system used (33 or 64)> -gsize <expected genome size in MBs> -l <Read length>

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### Perform read filtering
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perl FastQFS_V1.0.pl -filtering Yes -fw <Forward reads file> -rw <Reverse reads file> -prefix <Prefix for the output files> -sc <Scoring system used (33 or 64)> -mq <Base_quality_cutoff> -q <Average read quality threshold> -l <Length threshold> -plotting <Yes/No> -gsize <expected genome size in MBs>