Files in COHCAP
CpG Island Analysis Pipeline for Illumina Methylation Array and Targeted BS-Seq Data
CHANGES
README.md
NAMESPACE
DESCRIPTION
build/vignette.rds
src/RcppExports.cpp
src/Rcpp_BH_ANOVA.cpp
src/Rcpp_BH_linear_regression.cpp
src/Rcpp_BH_ttest.cpp
R/COHCAP.BSSeq_V2.methyl.table.R
R/COHCAP.annotate.R
R/COHCAP.avg.by.site.R
R/COHCAP.reformatFinalReport.R
R/COHCAP.qc.R
R/COHCAP.integrate.avg.by.site.R
R/COHCAP.avg.by.island.R
R/COHCAP.BSSeq.preprocess.R
R/COHCAP.denovo.R
R/COHCAP.integrate.avg.by.island.R
R/COHCAP.site.R
vignettes/COHCAP.Rnw
man/COHCAP.avg.by.site.Rd
man/COHCAP.qc.Rd
man/COHCAP.reformatFinalReport.Rd
man/COHCAP.site.Rd
man/COHCAP.BSSeq_V2.methyl.table.Rd
man/COHCAP.BSSeq.preprocess.Rd
man/COHCAP.avg.by.island.Rd
man/COHCAP.annotate.Rd
man/COHCAP.integrate.avg.by.site.Rd
man/COHCAP.integrate.avg.by.island.Rd
man/COHCAP.denovo.Rd
inst/CITATION
inst/doc/COHCAP.Rnw
inst/doc/COHCAP.R
inst/doc/COHCAP.pdf
inst/extdata/EPIC_DEMO_mapping.txt
inst/extdata/sample_GSE42308.txt
inst/extdata/expression-Average_by_Site_truncated.txt
inst/extdata/expression-Average_by_Island_truncated.txt
inst/extdata/EPIC_DEMO_samples.txt
inst/extdata/EPIC_DEMO.txt
inst/extdata/GSE42308_truncated.txt
inst/extdata/UCSC_CpG_Islands_truncated.bed
inst/extdata/GENCODE_Genes_truncated.bed
inst/extdata/BSSeq/SRR096437_truncated.bismark.cov
inst/extdata/BSSeq/SRR096438_truncated.bismark.cov
inst/extdata/BSSeq/HCT116_truncated.bed
inst/Perl/integrate_island.pl
inst/Perl/integrate_site.pl
inst/Perl/create_wig_files.pl
inst/Perl/downloaded_Ensembl_annotation.pl
inst/Perl/find_bismark_CpG_sites.pl
