fastcmh: Significant Interval Discovery with Categorical Covariates
Version 0.2.7

A method which uses the Cochran-Mantel-Haenszel test with significant pattern mining to detect intervals in binary genotype data which are significantly associated with a particular phenotype, while accounting for categorical covariates.

Browse man pages Browse package API and functions Browse package files

AuthorFelipe Llinares Lopez, Dean Bodenham
Date of publication2016-09-13 21:19:17
MaintainerDean Bodenham <deanbodenhambsse@gmail.com>
LicenseGPL-2 | GPL-3
Version0.2.7
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("fastcmh")

Man pages

demofastcmh: Demo of fastcmh
makefastcmhdata: Create sample data for fastcmh
runfastcmh: Run the fastcmh algorithm

Functions

checkFolderExists Source code
checkIsFolder Source code
checkdir Source code
cpp_test_filtering Source code
demofastcmh Man page Source code
doAnyOverlap Source code
doesOverlapIntervals Source code
fastcmhInfo Source code
fillWithNoise Source code
fixSeparator Source code
genSignifInt Source code
getCaseP Source code
insertSignifSubseq Source code
isCovariance Source code
loadDefaultFileNames Source code
main_fastcmh2 Source code
main_fastcmh_cpp Source code
makeSampleFilteringData Source code
makefastcmhdata Man page Source code
readkey Source code
runfastcmh Man page Source code

Files

inst
inst/extdata
inst/extdata/truetau.txt
inst/extdata/data2.txt
inst/extdata/label.txt
inst/extdata/data.txt
inst/extdata/unfilteredtest2.csv
inst/extdata/cov.txt
tests
tests/testthat.R
tests/testthat
tests/testthat/test1_filtering.R
tests/testthat/test3_fastcmh.R
tests/testthat/test2_morefiltering.R
src
src/rcppdatawrap.h
src/fastcmh_cpp.h
src/fdr.cpp
src/rcppdatawrap.cpp
src/filterIntervals.h
src/filterIntervals.cpp
src/fdr.h
src/RcppExports.cpp
src/fastcmh_cpp.cpp
NAMESPACE
R
R/fastcmh.R
R/RcppExports.R
R/demofastcmh.R
R/makefastcmhdata.R
MD5
DESCRIPTION
man
man/makefastcmhdata.Rd
man/runfastcmh.Rd
man/demofastcmh.Rd
fastcmh documentation built on May 19, 2017, 11:35 p.m.