Class: RGFA

Inherits:
Object
  • Object
show all
Includes:
RGFATools
Defined in:
lib/rgfatools.rb

Overview

The main class of RGFA. See the RGFA API documentation.

Constant Summary

Constants included from RGFATools::Multiplication

RGFATools::Multiplication::LINKS_DISTRIBUTION_POLICY

Method Summary

Methods included from RGFATools::PBubbles

#remove_p_bubble, #remove_p_bubbles

Methods included from RGFATools::LinearPaths

#merge_linear_path

Methods included from RGFATools::SuperfluousLinks

#enforce_all_mandatory_links, #enforce_segment_mandatory_links, #remove_self_link, #remove_self_links

Methods included from RGFATools::Multiplication

#multiply_with_rgfatools, #multiply_without_rgfatools

Methods included from RGFATools::InvertibleSegments

#randomly_orient_invertible, #randomly_orient_invertibles

Methods included from RGFATools::CopyNumber

#apply_copy_number, #apply_copy_numbers, #compute_copy_numbers, #delete_low_coverage_segments, #set_count_unit_length, #set_default_count_tag

Methods included from RGFATools::Artifacts

#remove_dead_ends, #remove_small_components