class Bio::Tcoffee

Bio::Tcoffee is a wrapper class to execute t-coffee.

Please refer documents in bio/apple/tcoffee.rb for references.

Constants

DEFAULT_PARSER

CLUSTAL W result data (*.aln file) parser class.

DEFAULT_PROGRAM

default program name

Private Instance Methods

_option_input_file(fn) click to toggle source

generates options specifying input filename. returns an array of string

# File lib/bio/appl/tcoffee.rb, line 38
def _option_input_file(fn)
  [ '-infile', fn ]
end
_option_output_dndfile(fn) click to toggle source

generates options specifying output filename. returns an array of string

# File lib/bio/appl/tcoffee.rb, line 50
def _option_output_dndfile(fn)
  [ '-newtree', fn ]
end
_option_output_file(fn) click to toggle source

generates options specifying output filename. returns an array of string

# File lib/bio/appl/tcoffee.rb, line 44
def _option_output_file(fn)
  [ '-outfile', fn ]
end