ped2geneSet {GeneticsBase}R Documentation

translate a ped matrix to a geneSet object

Description

Translate a ped matrix to a geneSet object.

Usage

  ped2geneSet(pedObj, quiet=FALSE)

Arguments

pedObj a list with five elements: ped, columns, markerNames, Position, and fileName. ped is a pedigree data frame whose first 6 columns are family (pedigree id), pid (patient id), father (father id), mother (mother id), sex, affected (affection status). The remaining columns are pairs of marker alleles. Each row corresponds to an individual; columns are the names of the first 5 (or 6) columns of ped file. It should be either equal to c("family","pid","father","mother","sex","affected") or equal to c("family","pid","father","mother","sex"); founderOnly indicates if using only founder info; markerNames is a vector of marker names; Position is a vector of marker positions; fileName is the pedidgree file name.
quiet print intermediate results if quiet=FALSE.

Value

An object of geneSet class.

Author(s)

Weiliang Qiu stwxq@channing.harvard.edu, Ross Lazarus ross.lazarus@channing.harvard.edu


[Package GeneticsBase version 1.8.0 Index]