r-cran-haplo.stats 1.4.4-1 / usr / lib / R / site-library / haplo.stats / CONTENTS

Entry: Ginv
Aliases: Ginv
Keywords: 
Description: Compute Generalized Inverse of Input Matrix
URL: ../../../library/haplo.stats/html/Ginv.html

Entry: chisq.power
Aliases: chisq.power chisq.power.dif chisq.sample.size
Keywords: 
Description: Power and sample size for the chi-square distribution
URL: ../../../library/haplo.stats/html/chisq.power.html

Entry: f.power
Aliases: f.power f.power.dif f.sample.size
Keywords: 
Description: Power and sample size for the F distribution
URL: ../../../library/haplo.stats/html/f.power.html

Entry: find.haplo.beta.qt
Aliases: find.haplo.beta.qt find.beta.qt.phase.known find.intercept.qt.phase.known
Keywords: 
Description: Find beta's for risk haplotypes, for specified r2
URL: ../../../library/haplo.stats/html/find.haplo.beta.qt.html

Entry: geno.count.pairs
Aliases: geno.count.pairs
Keywords: 
Description: Counts of Total Haplotype Pairs Produced by Genotypes
URL: ../../../library/haplo.stats/html/geno.count.pairs.html

Entry: geno1to2
Aliases: geno1to2
Keywords: utilities
Description: convert genotype matrix from 1-column 2-column
URL: ../../../library/haplo.stats/html/geno1to2.html

Entry: get.hapPair
Aliases: get.hapPair
Keywords: 
Description: Get a list of objects for haplotype pairs
URL: ../../../library/haplo.stats/html/get.hapPair.html

Entry: glm.fit.nowarn
Aliases: glm.fit.nowarn
Keywords: 
Description: Modified from glm.fit function to not warn users for binomial non-integer weights.
URL: ../../../library/haplo.stats/html/glm.fit.nowarn.html

Entry: hapPower.demo
Aliases: hapPower.demo
Keywords: datasets
Description: Set of haplotypes and frequencies for power and sample size calculations
URL: ../../../library/haplo.stats/html/hapPower.demo.html

Entry: haplo.cc
Aliases: haplo.cc
Keywords: 
Description: Haplotype Association Analysis in a Case-Control design
URL: ../../../library/haplo.stats/html/haplo.cc.html

Entry: haplo.design
Aliases: haplo.design
Keywords: models
Description: Build a design matrix for haplotypes
URL: ../../../library/haplo.stats/html/haplo.design.html

Entry: haplo.em
Aliases: haplo.em
Keywords: 
Description: EM Computation of Haplotype Probabilities, with Progressive Insertion of Loci
URL: ../../../library/haplo.stats/html/haplo.em.html

Entry: haplo.em.control
Aliases: haplo.em.control
Keywords: 
Description: Create the Control Parameters for the EM Computation of Haplotype Probabilities, with Progressive Insertion of Loci
URL: ../../../library/haplo.stats/html/haplo.em.control.html

Entry: haplo.em.fitter
Aliases: haplo.em.fitter
Keywords: 
Description: Compute engine for haplotype EM algorithm
URL: ../../../library/haplo.stats/html/haplo.em.fitter.html

Entry: haplo.glm
Aliases: haplo.glm
Keywords: 
Description: GLM Regression of Trait on Ambiguous Haplotypes
URL: ../../../library/haplo.stats/html/haplo.glm.html

Entry: haplo.glm.control
Aliases: haplo.glm.control
Keywords: 
Description: Create list of control parameters for haplo.glm
URL: ../../../library/haplo.stats/html/haplo.glm.control.html

Entry: haplo.group
Aliases: haplo.group
Keywords: 
Description: Frequencies for Haplotypes by Grouping Variable
URL: ../../../library/haplo.stats/html/haplo.group.html

Entry: haplo.hash
Aliases: haplo.hash
Keywords: 
Description: Integer Rank Codes for Haplotypes
URL: ../../../library/haplo.stats/html/haplo.hash.html

Entry: haplo.model.frame
Aliases: haplo.model.frame
Keywords: models
Description: Sets up a model frame for haplo.glm
URL: ../../../library/haplo.stats/html/haplo.model.frame.html

Entry: haplo.power.cc
Aliases: haplo.power.cc haplo.power.cc.ncp find.intercept.logistic
Keywords: design
Description: Compute either power or sample size for haplotype associations in a case-control study.
URL: ../../../library/haplo.stats/html/haplo.power.cc.html

Entry: haplo.power.qt
Aliases: haplo.power.qt haplo.power.qt.ncp
Keywords: design
Description: Compute either power or sample size for haplotype associations with a quantitative trait.
URL: ../../../library/haplo.stats/html/haplo.power.qt.html

Entry: haplo.scan
Aliases: haplo.scan haplo.scan.obs haplo.scan.sim
Keywords: 
Description: Search for a trait-locus by sliding a fixed-width window over each marker locus and scanning all possible haplotype lengths within the window
URL: ../../../library/haplo.stats/html/haplo.scan.html

Entry: haplo.score
Aliases: haplo.score
Keywords: 
Description: Score Statistics for Association of Traits with Haplotypes
URL: ../../../library/haplo.stats/html/haplo.score.html

Entry: haplo.score.merge
Aliases: haplo.score.merge
Keywords: 
Description: Merge haplo.score And haplo.group Objects
URL: ../../../library/haplo.stats/html/haplo.score.merge.html

Entry: haplo.score.slide
Aliases: haplo.score.slide
Keywords: 
Description: Score Statistics for Association of Traits with Haplotypes
URL: ../../../library/haplo.stats/html/haplo.score.slide.html

Entry: hla.demo
Aliases: hla.demo
Keywords: datasets
Description: HLA Loci and Serologic Response to Measles Vaccination
URL: ../../../library/haplo.stats/html/hla.demo.html

Entry: geno.recode
Aliases: allele.recode geno.recode dglm.fit haplo.chistat haplo.enum haplo.score.glm haplo.score.podds mf.gindx residScaledGlmFit sr.class sr.class<- varfunc.glm.fit
Keywords: 
Description: Internal functions for the HaploStats package. See the help file for the main functions (haplo.em, haplo.score, haplo.glm) for details on some of these functions.
URL: ../../../library/haplo.stats/html/internalHaploStats.html

Entry: locator.haplo
Aliases: locator.haplo
Keywords: 
Description: Find Location from Mouse Clicks and Print Haplotypes on Plot
URL: ../../../library/haplo.stats/html/locator.haplo.html

Entry: loci
Aliases: loci
Keywords: 
Description: Create a group of locus objects from a genotype matrix, assign to 'model.matrix' class.
URL: ../../../library/haplo.stats/html/loci.html

Entry: locus
Aliases: locus
Keywords: classes
Description: Creates an object of class "locus"
URL: ../../../library/haplo.stats/html/locus.html

Entry: louis.info
Aliases: louis.info
Keywords: 
Description: Louis Information for haplo.glm
URL: ../../../library/haplo.stats/html/louis.info.html

Entry: na.geno.keep
Aliases: na.geno.keep
Keywords: 
Description: Remove rows with NA in covariates, but keep genotypes with NAs
URL: ../../../library/haplo.stats/html/na.geno.keep.html

Entry: plot.haplo.score
Aliases: plot.haplo.score
Keywords: 
Description: Plot Haplotype Frequencies versus Haplotype Score Statistics
URL: ../../../library/haplo.stats/html/plot.haplo.score.html

Entry: plot.haplo.score.slide
Aliases: plot.haplo.score.slide
Keywords: 
Description: Plot a haplo.score.slide Object
URL: ../../../library/haplo.stats/html/plot.haplo.score.slide.html

Entry: plot.seqhap
Aliases: plot.seqhap
Keywords: 
Description: Plot a seqhap object
URL: ../../../library/haplo.stats/html/plot.seqhap.html

Entry: print.haplo.cc
Aliases: print.haplo.cc
Keywords: 
Description: Print a haplo.cc object
URL: ../../../library/haplo.stats/html/print.haplo.cc.html

Entry: print.haplo.em
Aliases: print.haplo.em
Keywords: 
Description: Print contents of a haplo.em object
URL: ../../../library/haplo.stats/html/print.haplo.em.html

Entry: print.haplo.glm
Aliases: print.haplo.glm
Keywords: 
Description: Print a contents of a haplo.glm object
URL: ../../../library/haplo.stats/html/print.haplo.glm.html

Entry: print.haplo.group
Aliases: print.haplo.group
Keywords: 
Description: Print a haplo.group object
URL: ../../../library/haplo.stats/html/print.haplo.group.html

Entry: print.haplo.scan
Aliases: print.haplo.scan
Keywords: 
Description: Print a haplo.scan object
URL: ../../../library/haplo.stats/html/print.haplo.scan.html

Entry: print.haplo.score
Aliases: print.haplo.score
Keywords: 
Description: Print a haplo.score object
URL: ../../../library/haplo.stats/html/print.haplo.score.html

Entry: print.haplo.score.merge
Aliases: print.haplo.score.merge
Keywords: 
Description: Print a haplo.score.merge object
URL: ../../../library/haplo.stats/html/print.haplo.score.merge.html

Entry: print.haplo.score.slide
Aliases: print.haplo.score.slide
Keywords: 
Description: Print the contents of a haplo.score.slide object
URL: ../../../library/haplo.stats/html/print.haplo.score.slide.html

Entry: print.seqhap
Aliases: print.seqhap
Keywords: 
Description: Print Contents of a Seqhap Object
URL: ../../../library/haplo.stats/html/print.seqhap.html

Entry: printBanner
Aliases: printBanner
Keywords: 
Description: Print a nice banner
URL: ../../../library/haplo.stats/html/printBanner.html

Entry: score.sim.control
Aliases: score.sim.control
Keywords: 
Description: Create the list of control parameters for simulations in haplo.score
URL: ../../../library/haplo.stats/html/score.sim.control.html

Entry: seqhap
Aliases: seqhap
Keywords: 
Description: Sequential Haplotype Scan Association Analysis for Case-Control Data
URL: ../../../library/haplo.stats/html/seqhap.html

Entry: seqhap.dat
Aliases: seqhap.dat seqhap.pos
Keywords: datasets
Description: Simulated data for seqhap examples
URL: ../../../library/haplo.stats/html/seqhap.dat.html

Entry: setupData
Aliases: setupData
Keywords: 
Description: Set up an example dataset provided within the library.
URL: ../../../library/haplo.stats/html/setupData.html

Entry: setupGeno
Aliases: setupGeno
Keywords: 
Description: Create a group of locus objects from a genotype matrix, assign to 'model.matrix' class.
URL: ../../../library/haplo.stats/html/setupGeno.html

Entry: summary.haplo.em
Aliases: summary.haplo.em
Keywords: 
Description: Summarize contents of a haplo.em object
URL: ../../../library/haplo.stats/html/summary.haplo.em.html

Entry: summaryGeno
Aliases: summaryGeno
Keywords: 
Description: Summarize Full Haplotype Enumeration on Genotype Matrix
URL: ../../../library/haplo.stats/html/summaryGeno.html

Entry: x.sexcheck
Aliases: x.sexcheck
Keywords: 
Description: consistency checks for x.linked locus
URL: ../../../library/haplo.stats/html/x.sexcheck.html