iPE::Estimator(3)

NAME
iPE::Estimator - The main workhorse object of iPE.

DESCRIPTION
This object handles the dispatching of input files and actions to the objects which estimate the parameters and output parameters in iParameterEstimation.

FUNCTIONS

new (href)
    Creates a new estimator object. Requires a file which describes the model (parameter file or XML parameter template), a feature mapping and a set of input sequences. These are described in the href passed in as follows:

    gHMMFile
        The name of the file containing the gHMM definition.

    featureMapFiles
        An array reference to names of files created.

    annotationFiles
        Array reference of annotations to use for estimating parameters.

    dnaFiles
        Array reference of DNA files to use for training in FASTA format.

    consFiles
        Array reference of conservation sequence files for training in FASTA format.

outputGhmmToFile (filename, format, mode)
    Outputs the gHMM in its current state to a file. If the filename is the empty string, no file is output. Acceptable formats are zoe and xml.

SEE ALSO
iPE

AUTHOR
Bob Zimmermann (rpz@cse.wustl.edu)