class Bio::Blat::Report::SeqDesc
Bio::Blat::Report::SeqDesc stores sequence information of query or subject of the BLAT report. It also includes some hit information.
Attributes
end[R]
end position of the final segment
gap_bases[R]
gap bases
gap_count[R]
gap count
name[R]
name of the sequence
seqs[R]
sequences of segments. Returns an array of String. Returns nil if there are no sequence data.
size[R]
length of the sequence
start[R]
start position of the first segment
starts[R]
start positions of segments. Returns an array of numbers.
Public Class Methods
new(gap_count, gap_bases, name, size, st, ed, starts, seqs)
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Creates a new SeqDesc object. It is designed to be called internally from Bio::Blat::Report class. Users shall not use it directly.
# File lib/bio/appl/blat/report.rb 161 def initialize(gap_count, gap_bases, name, size, 162 st, ed, starts, seqs) 163 @gap_count = gap_count.to_i 164 @gap_bases = gap_bases.to_i 165 @name = name 166 @size = size.to_i 167 @start = st.to_i 168 @end = ed.to_i 169 @starts = starts.collect { |x| x.to_i } 170 @seqs = seqs 171 end