fastcmh: Significant Interval Discovery with Categorical Covariates

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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.

Author
Felipe Llinares Lopez, Dean Bodenham
Date of publication
2016-09-13 21:19:17
Maintainer
Dean Bodenham <deanbodenhambsse@gmail.com>
License
GPL-2 | GPL-3
Version
0.2.7

View on CRAN

Man pages

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

Files in this package

fastcmh
fastcmh/inst
fastcmh/inst/extdata
fastcmh/inst/extdata/truetau.txt
fastcmh/inst/extdata/data2.txt
fastcmh/inst/extdata/label.txt
fastcmh/inst/extdata/data.txt
fastcmh/inst/extdata/unfilteredtest2.csv
fastcmh/inst/extdata/cov.txt
fastcmh/tests
fastcmh/tests/testthat.R
fastcmh/tests/testthat
fastcmh/tests/testthat/test1_filtering.R
fastcmh/tests/testthat/test3_fastcmh.R
fastcmh/tests/testthat/test2_morefiltering.R
fastcmh/src
fastcmh/src/rcppdatawrap.h
fastcmh/src/fastcmh_cpp.h
fastcmh/src/fdr.cpp
fastcmh/src/rcppdatawrap.cpp
fastcmh/src/filterIntervals.h
fastcmh/src/filterIntervals.cpp
fastcmh/src/fdr.h
fastcmh/src/RcppExports.cpp
fastcmh/src/fastcmh_cpp.cpp
fastcmh/NAMESPACE
fastcmh/R
fastcmh/R/fastcmh.R
fastcmh/R/RcppExports.R
fastcmh/R/demofastcmh.R
fastcmh/R/makefastcmhdata.R
fastcmh/MD5
fastcmh/DESCRIPTION
fastcmh/man
fastcmh/man/makefastcmhdata.Rd
fastcmh/man/runfastcmh.Rd
fastcmh/man/demofastcmh.Rd