Class: Bio::Ngs::Cufflinks::Merge

Inherits:

Object

Object
Bio::Ngs::Cufflinks::Merge

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Includes:: Command::Wrapper

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

Overview

Options: -h/--help Prints the help message and exits -o <output_dir> Directory where merged assembly will be written [ default: ./merged_asm ] -g/--ref-gtf An optional "reference" annotation GTF. -s/--ref-sequence <seq_dir>/<seq_fasta> Genomic DNA sequences for the reference. --min-isoform-fraction <0-1.0> Discard isoforms with abundance below this [ default: 0.05 ] -p/--num-threads Use this many threads to merge assemblies. [ default: 1 ] --keep-tmp Keep all intermediate files during merge

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?