readGenes.ped {GeneticsBase}R Documentation

Function to read pedigree file format

Description

Function to read pedigree file format

Usage

readGenes.ped(filename, columns = c("family", "pid", "father", "mother", "sex"), 
              phase = list(FALSE), quiet = FALSE, missingval = c(0), ...)
readGenes.hapmap.ped(filename, ...)
readGenes.fbat.ped(filename, ...)
readGenes.pbat.ped(filename, ...)

Arguments

filename Name of the file in which data is stored
columns Name of the columns in the pedigree file - by default points to "family", "pid", "father", "mother", "sex"
phase 1. Yes/No for all (logical scalar) 2. Yes/No for each Marker (logical vector) 3. phaseObject (TBD): observation by marker by phase probabilities + definitions of contigs + probability of contigs
quiet Logical: whether the progress of reading the file should be displayed.
missingval Missing values (if any) to obtain missingCodes
... Additional arguments to function read.table

Author(s)

Gregory R. Warnes warnes@bst.rochester.edu and Nitin Jain nitin.jain@pfizer.com


[Package GeneticsBase version 1.8.0 Index]