Class: Bio::Ngs::Fastx::ReadsCoverage

Inherits:

Object

Object
Bio::Ngs::Fastx::ReadsCoverage

show all

Includes:: Command::Wrapper

Defined in:: lib/bio/appl/ngs/fastx.rb

Overview

Solexa-Reads coverage plotter Generates a solexa line coverage graph

Usage: /usr/local/bin/fastq_coverage_graph.sh [-i INPUT.TXT] [-t TITLE] [-p] [-o OUTPUT]

[-p]           - Generate PostScript (.PS) file. Default is PNG image.
[-i INPUT.TXT] - Input file. Should be the output of "solexa_quality_statistics" program.
[-o OUTPUT]    - Output file name. default is STDOUT.
[-t TITLE]     - Title (usually the solexa file name) - will be plotted on the graph.

Method Summary

Methods included from Command::Wrapper

#class_name, #default_options, included, #initialize, #normalize_params, #options, #options=, #output, #params, #params=, #path, #path=, #pipe_ahead, #pipe_ahead=, #pipe_ahead?, #program, #reset_params, #run, #sub_program, #thor_task, #to_cmd_ary, #use_aliases?