Allows to analyze and visualize differential methylation in genomic regions. ADMIRE is a semi-automatic pipeline that features five different normalization methods and performs two one-sided two-sample rank tests (Mann–Whitney U tests). The software features arbitrary experimental settings, quality control, automatic filtering, normalization, multiple testing, differential analyses on arbitrary genomic regions. It additionally implements a gene set enrichment procedure.
A package that aims for the DNA methylation data analysis and visualization. A MethyGenoSet class is defined to keep the chromosome location information together with the data. methyAnalysis also includes functions of estimating the methylation levels from Methy-Seq data.