module RGFATools::Artifacts
Methods which edit the graph components without traversal
Public Instance Methods
remove_dead_ends(minlen)
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Remove end segments, whose sequence length is under a specified value. @param minlen [Integer] the minimum length @return [RGFA] self
# File lib/rgfatools/artifacts.rb, line 19 def remove_dead_ends(minlen) segments.each do |s| c = connectivity(s) rm(s) if s.length < minlen and (c[0] == 0 or c[1] == 0) and !cut_segment?(s) end self end
remove_small_components(minlen)
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Remove connected components whose sum of lengths of the segments is under a specified value. @param minlen [Integer] the minimum length @return [RGFA] self
# File lib/rgfatools/artifacts.rb, line 10 def remove_small_components(minlen) rm(connected_components.select {|cc| cc.map{|sn|segment(sn).length}.reduce(:+) < minlen }) self end