Provided by: libbio-featureio-perl_1.6.905-2_all bug


       Bio::FeatureIO::bed - read/write features from UCSC BED format


         my $in = Bio::FeatureIO(-format => 'bed', -file => 'file.bed');
         for my $feat ($in->next_feature) {
           # do something with $feat (a Bio::SeqFeature::Annotated object)

         my $out = Bio::FeatureIO(-format=>'bed');
         for my $feat ($seq->get_seqFeatures) {


       See <>.

       Currently for read and write only the first 6 fields (chr, start, end, name, score,
       strand) are supported.


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AUTHOR - Allen Day



       Sendu Bala,


       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

        Title   : _initialize
        Function: initializes BED for reading/writing
        Args    : all optional:
                  name          description
                  -name         the name for the BED track, stored in header
                                name defaults to localtime()
                  -description  the description for the BED track, stored in
                                header.  defaults to localtime().
                  -use_score    whether or not the score attribute of
                                features should be used when rendering them.
                                the higher the score the darker the color.
                                defaults to 0 (false)

        Title   : use_score
        Usage   : $obj->use_score($newval)
        Function: should score be used to adjust feature color when rendering?  set to true if so.
        Example :
        Returns : value of use_score (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

        Title   : name
        Usage   : $obj->name($newval)
        Function: name of BED track
        Example :
        Returns : value of name (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

        Title   : description
        Usage   : $obj->description($newval)
        Function: description of BED track
        Example :
        Returns : value of description (a scalar)
        Args    : on set, new value (a scalar or undef, optional)