class Bio::GFF::Record
Represents a single line of a GFF-formatted file. See Bio::GFF for more information.
Attributes
List of tag=value pairs (e.g. to store name of the feature: ID=my_id)
Comments for the GFF record
End position of feature on reference sequence
Name of the feature
For features of type 'exon': indicates where feature begins in the reading frame
Score of annotation (e.g. e-value for BLAST search)
Name of the reference sequence
Name of the source of the feature (e.g. program that did prediction)
Start position of feature on reference sequence
Strand that feature is located on
Public Class Methods
Creates a Bio::GFF::Record object. Is typically not called directly, but is called automatically when creating a Bio::GFF object.
Arguments:
-
str: a tab-delimited line in GFF format
# File lib/bio/db/gff.rb, line 124 def initialize(str) @comment = str.chomp[/#.*/] return if /^#/.match(str) @seqname, @source, @feature, @start, @end, @score, @strand, @frame, attributes, = str.chomp.split("\t") @attributes = parse_attributes(attributes) if attributes end
Public Instance Methods
“comments” is deprecated. Instead, use “comment”.
# File lib/bio/db/gff.rb, line 108 def comments #warn "#{self.class.to_s}#comments is deprecated. Instead, use \"comment\"." if $VERBOSE self.comment end
“comments=” is deprecated. Instead, use “comment=”.
# File lib/bio/db/gff.rb, line 114 def comments=(str) #warn "#{self.class.to_s}#comments= is deprecated. Instead, use \"comment=\"." if $VERBOSE self.comment = str end