scores2wide: Convert a scores file from long to wide format

In fitPoly: Genotype Calling for Bi-Allelic Marker Assays

Convert a scores file from long to wide format

Description

The fitMarkers function of package fitPoly returns a scores file in "long" format: one row for each MarkerName / SampleName combination. This function creates a file in "wide" format (samples in columns, markers in rows) containing the data from the geno column of the scores file. Faster, less memory-expensive and easier to use than reshape.

Usage

scores2wide(scores, outfile=NA)

Arguments

scores	a data frame read from the scorefile output of saveMarkeModels in package fitPoly. The order of the markers within each sample does not have to be the same or v.v., there is no requirement for any ordering of scores. However if scores is not ordered by MarkerName and SampleName and/or not all markers are present for all samples (or v.v.) this results in a slower processing.
outfile	a file name to which the result is written. If NA no file is written.

Value

A data frame with column names marker, MarkerName and all sample names, and one row per marker. Marker is the sequential number of the marker as reported in the scores data frame.

fitPoly documentation built on April 3, 2025, 8:58 p.m.