GESE: Gene-Based Segregation Test
Version 2.0.1

Implements the gene-based segregation test(GESE) and the weighted GESE test for identifying genes with causal variants of large effects for family-based sequencing data. The methods are described in Qiao, D. Lange, C., Laird, N.M., Won, S., Hersh, C.P., et al. (2017). . Gene-based segregation method for identifying rare variants for family-based sequencing studies. Genet Epidemiol 41(4):309-319. More details can be found at .

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AuthorDandi Qiao, Michael H. Cho
Date of publication2017-05-18 18:16:22 UTC
MaintainerDandi Qiao <redaq@channing.harvard.edu>
LicenseGPL-2
Version2.0.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("GESE")

Man pages

condSegProbF: Computes conditional segregation probability for the family
database: database file in example
dataRaw: dataRaw - a data frame containing the pedigree, phenotype and...
GESE: Gene-Based Segregation Test
GESE-internal: GESE package internal functions
GESE-package: Gene-Based Segregation Test
getSegInfo: Computes segregation information for different mode of...
mapInfo: mafInfo - example data
pednew: pednew - an example pedigree structure
trim_oneLineage: Trims the pedigree structure to include one lineage only.
trim_unrelated: Trims the pedigree structure to exclude multiple founder...

Functions

GESE Man page Source code
GESE-internal functions Man page
GESE-package Man page
computeP_resampling Source code
condSegProbF Man page Source code
dataRaw Man page
database Man page
findIntermediateFounder Source code
findMostRecentCommonFounder Source code
findMostRecentCommonFounderControl Source code
getFounder Source code
getProb Source code
getProb_weight Source code
getPvalue_resampling Source code
getSegInfo Man page Source code
getTranProb_dv Source code
isRelated Source code
mapInfo Man page
oneSetSim Source code
pednew Man page
segProb Source code
trim_oneLineage Man page Source code
trim_unrelated Man page Source code

Files

inst
inst/doc
inst/doc/my-vignette.Rmd
inst/doc/my-vignette.R
inst/doc/my-vignette.pdf
NAMESPACE
data
data/mapInfo.rda
data/dataRaw.rda
data/pednew.rda
data/database.rda
R
R/getProb_weight.R
R/getSegInfo.R
R/findIntermediateFounder.R
R/condSegProbF.R
R/findMostRecentCommonFounderControl.R
R/getTranProb_dv.R
R/getProb.R
R/GESE.R
R/getPvalue_resampling.R
R/trim_oneLineage.R
R/trim_unrelated.R
R/getFounder.R
R/findMostRecentCommonFounder.R
R/computeP_resampling.R
R/oneSetSim.R
R/segProb.R
R/isRelated.R
vignettes
vignettes/my-vignette.Rmd
MD5
build
build/vignette.rds
build/partial.rdb
DESCRIPTION
man
man/trim_oneLineage.Rd
man/GESE.Rd
man/GESE-internal.Rd
man/getSegInfo.Rd
man/GESE-package.Rd
man/pednew.Rd
man/database.Rd
man/mapInfo.Rd
man/dataRaw.Rd
man/trim_unrelated.Rd
man/condSegProbF.Rd
GESE documentation built on May 19, 2017, 2:56 p.m.