What the package does (short line)

[Package List] [Top]

Documentation for package `permuProc' version 1.0

Help Pages

permuProc-package What the package does (short line) ~~ package title ~~
acrossMarkerClogit Conduct a single marker conditional logistic regression on all markers with the observed disease status within each pedegree
acrossMarkerTest Conduct a single marker conditional logistic regression on all markers with the same randomly assigned disease status within each pedegree
acrossMarkerTest.matchCaseId Replace the original matrix/data.frame for single marker regression analysis with the randomly assigned disease status
genTDDframe generate the genotypic data for pesudo controls given the genotypes of the affected cases and their parents
genTDDframe.geno.match Based on pedigree id, father and mother's id for one case, find out his/her parents information and create pseudo controls based on genotypic coding scheme
permuProc What the package does (short line) ~~ package title ~~
permuTest Conduct a fixed number, permuCt, of single marker regression, and retain all the p-value from log likelihood ratio test
snpMap.addKeys add the keys info to the information map, snpMap
snpMapContr a class constructor to capsulate all relevant information about the data.frame storing snp data
stackerList transform a data frame from wide format into long form
util.list.rmByKeyVal Remove an element from a list according to a list of primary key values
util.randomCaseAssign Generate a vector of 0/1, where for every segLen numbers (a segment), the poisition of number 1 is randomly picked by a uniform distribution.
util.str.seqcut Generate a vector of strings as a result of spliting a string with a sequence of delimiters
util.str.tokenPicker Extract the ith elements in a string split by a deliminator
wrComTbl convert data in a matrix into a vector of strings with rounding or write them to a comma separate file