NAME

       search_overview -- Render a SearchIO parser report into a simple overview graphic

SYNOPSIS

       search_overview -i filename [-f format] [-o outputfilename] [--labels]

DESCRIPTION

       This script will take any Bio::SearchIO parseable report and turn it into a simple
       overview graphic of the report.  For our purposes we are assuming BLAST and the BLAST
       scores when assigning colors.  Output is a PNG format file.

       This is not intended to be an overly customized script, rather it should probably just be
       either a quick and dirty look at a report or a starting point for more complicated
       implementations.

       The color is determined by the hit score which is currently pegged to the NCBI scheme
       which looks like this

        RED     E<gt>= 200
        PURPLE  80-200
        GREEN   50-80
        BLUE    40-50
        BLACK   E<lt>40

       Options:
        -i/--input        The input filename, otherwise input is assumed from STDIN
        -o/--output       The output filename, this is optional, if you do not
                          provide the output filename the script will create a file
                          using the name of the query sequence and will process
                          all the sequences in the file.  If an output filename
                          IS provided the script will only display an image for the
                          first one.
        -f/--format       The SearchIO format parser to use, if not provided
                          SearchIO will guess based on the file extension.
        -l/--labels       Display the hit sequence name as a label in the overview.
                          For lots of sequences this will make the image very long
                          so by default it is turned off.

AUTHOR Jason Stajich

       Jason Stajich, jason[-at-]open-bio[-dot-]org.