Files in lissettegomez/coMethDMR
Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/AnnotateResults.R
R/CloseBySingleRegion.R
R/CoMethAllRegions.R
R/CoMethSingleRegion.R
R/CpGsInfoAllRegions.R
R/CpGsInfoOneRegion.R
R/CreateOutputDF.R
R/CreateRdrop.R
R/FindComethylatedRegions.R
R/GetCpGsInRegion.R
R/GetResiduals.R
R/MarkComethylatedCpGs.R
R/WriteCloseByAllRegions.R
R/data_betaMatrixChr22_df.R
R/data_betaMatrix_ex1.R
R/data_betaMatrix_ex2.R
R/data_betaMatrix_ex3.R
R/data_betaMatrix_ex4.R
R/data_pheno_df.R
R/lmmTest.R
R/lmmTestAllRegions.R
R/util1_OrderCpGsByLocation.R
R/util2_NameRegion.R
R/util3_SplitCpGsSubregionsDataFrameToList.R
R/util4_RegionsToRanges.R
R/utils_CreateParallelWorkers.R
README.md
coMethDMR.Rproj
data/betaMatrix_ex1.rda
data/betaMatrix_ex2.rda
data/betaMatrix_ex3.rda
data/betaMatrix_ex4.rda
data/betasChr22_df.rda
data/pheno_df.rda
inst/extdata/450k_CpGstoGene_min3CpGs.rds
inst/extdata/450k_Gene_3_200.rds
inst/extdata/450k_InterGene_3_200.rds
inst/extdata/CpGislandsChr22_ex.RDS
inst/extdata/EPIC_CpGstoGene_min3CpGs.rds
inst/extdata/EPIC_Gene_3_200.rds
inst/extdata/EPIC_InterGene_3_200.rds
inst/extdata/ISLANDInd.gmt
inst/extdata/ISLAND_3_200.rds
inst/scripts/createList_InterGeneCpGs.R
inst/scripts/createList_InterGeneCpGsEPIC.R
inst/scripts/createList_geneCpGs.R
inst/scripts/createList_geneCpGsEPIC.R
inst/scripts/create_chr22exFile.R
man/AnnotateResults.Rd
man/CloseBySingleRegion.Rd
man/CoMethAllRegions.Rd
man/CoMethSingleRegion.Rd
man/CpGsInfoAllRegions.Rd
man/CpGsInfoOneRegion.Rd
man/CreateOutputDF.Rd
man/CreateParallelWorkers.Rd
man/CreateRdrop.Rd
man/FindComethylatedRegions.Rd
man/GetCpGsInRegion.Rd
man/GetResiduals.Rd
man/MarkComethylatedCpGs.Rd
man/NameRegion.Rd
man/OrderCpGsByLocation.Rd
man/RegionsToRanges.Rd
man/SplitCpGDFbyRegion.Rd
man/WriteCloseByAllRegions.Rd
man/betaMatrix_ex1.Rd
man/betaMatrix_ex2.Rd
man/betaMatrix_ex3.Rd
man/betaMatrix_ex4.Rd
man/betasChr22_df.Rd
man/lmmTest.Rd
man/lmmTestAllRegions.Rd
man/pheno_df.Rd
tests/testthat.R
tests/testthat/test_CoMethAllRegions.R
tests/testthat/test_lmmTest.R
tests/testthat/test_lmmTestAllRegions.R
tests/testthat/test_nameRegion.R
vignettes/vin1_Introduction_to_coMethDMR_geneBasedPipeline.Rmd
vignettes/vin2_BiocParallel_for_coMethDMR_geneBasedPipeline.Rmd
