class CRB_Blast::Hit
Attributes
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score
Public Class Methods
# File lib/crb-blast/hit.rb, line 9 def initialize(list, qprot, tprot) raise(RuntimeError, "unexpected number of columns") if list.length < 14 @query = Bio::FastaDefline.new(list[0]).entry_id @target = Bio::FastaDefline.new(list[1]).entry_id @id = list[2] @alnlen = list[3].to_i @mismatches = list[4].to_i @gaps = list[5].to_i @qstart = list[6].to_i @qend = list[7].to_i @tstart = list[8].to_i @tend = list[9].to_i @evalue = list[10].to_f @bitscore = list[11].to_f @qlen = list[12].to_f @tlen = list[13].to_f @qprot = qprot # bool @tprot = tprot # bool end
Public Instance Methods
# File lib/crb-blast/hit.rb, line 29 def to_s s = "#{@query}\t#{@target}\t#{@id}\t#{@alnlen}\t#{@evalue}\t#{@bitscore}\t" s << "#{@qstart}..#{@qend}\t#{@tstart}..#{@tend}\t#{@qlen}\t#{@tlen}" return s end