# Functional analysis of DNA methylome datasets

## Documentation for package ‘knowYourCG’ version 1.2.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

aggregateTestEnrichments | Aggregate test enrichment results
annoProbes | Annotate Probe IDs using KYCG databases
buildGeneDBs | build gene-probe association database
dbStats | dbStats aggregates methylation of a given betas matrix over specified database set features
getDBs | Get databases by full or partial names of the database group(s)
listDBGroups | List database group names
testEnrichment | testEnrichment tests for the enrichment of a set of probes (query set) in a number of features (database sets).
testEnrichmentFisher | testEnrichmentFisher uses Fisher's exact test to estimate the association between two categorical variables.
testEnrichmentSEA | uses the GSEA-like test to estimate the association of a categorical variable against a continuous variable.
testEnrichmentSpearman | testEnrichmentSpearman uses the Spearman statistical test to estimate the association between two continuous variables.
testGO | tests Gene Ontology of genes overlapping CpG query
testProbeProximity | testProbeProximity tests if a query set of probes share closer genomic proximity than if randomly distributed