DMRforPairs: DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profiles

DMRforPairs (formerly DMR2+) allows researchers to compare n>=2 unique samples with regard to their methylation profile. The (pairwise) comparison of n unique single samples distinguishes DMRforPairs from other existing pipelines as these often compare groups of samples in either single CpG locus or region based analysis. DMRforPairs defines regions of interest as genomic ranges with sufficient probes located in close proximity to each other. Probes in one region are optionally annotated to the same functional class(es). Differential methylation is evaluated by comparing the methylation values within each region between individual samples and (if the difference is sufficiently large), testing this difference formally for statistical significance.

AuthorMartin Rijlaarsdam [aut, cre], Yvonne vd Zwan [aut], Lambert Dorssers [aut], Leendert Looijenga [aut]
Date of publicationNone
MaintainerMartin Rijlaarsdam <m.a.rijlaarsdam@gmail.com>
LicenseGPL (>= 2)
Version1.10.0
http://www.martinrijlaarsdam.nl, http://www.erasmusmc.nl/pathologie/research/lepo/3898639/

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Files

DMRforPairs/DESCRIPTION
DMRforPairs/NAMESPACE
DMRforPairs/NEWS
DMRforPairs/R
DMRforPairs/R/functions.R
DMRforPairs/build
DMRforPairs/build/vignette.rds
DMRforPairs/data
DMRforPairs/data/DMRforPairs_data.RData
DMRforPairs/data/datalist
DMRforPairs/inst
DMRforPairs/inst/CITATION
DMRforPairs/inst/doc
DMRforPairs/inst/doc/DMRforPairs_vignette.R
DMRforPairs/inst/doc/DMRforPairs_vignette.Rnw
DMRforPairs/inst/doc/DMRforPairs_vignette.pdf
DMRforPairs/man
DMRforPairs/man/CL.methy.Rd DMRforPairs/man/DMRforPairs-package.Rd DMRforPairs/man/DMRforPairs.Rd DMRforPairs/man/calc_stats.Rd DMRforPairs/man/example_output_DMRforPairs.Rd DMRforPairs/man/export_data.Rd
DMRforPairs/man/figures
DMRforPairs/man/figures/FunctionSchedule.png
DMRforPairs/man/merge_classes.Rd DMRforPairs/man/plot_annotate_custom_region.Rd DMRforPairs/man/plot_annotate_gene.Rd DMRforPairs/man/plot_annotate_probes.Rd DMRforPairs/man/plot_annotate_region.Rd DMRforPairs/man/regionfinder.Rd DMRforPairs/man/testregion.Rd DMRforPairs/man/tune_parameters.Rd
DMRforPairs/vignettes
DMRforPairs/vignettes/16.png
DMRforPairs/vignettes/16_annotated.png
DMRforPairs/vignettes/BMPER.png
DMRforPairs/vignettes/BMPER_TSS.png
DMRforPairs/vignettes/BMPER_TSS_annotated.png
DMRforPairs/vignettes/BMPER_annotated.png
DMRforPairs/vignettes/DMRforPairs_vignette.Rnw
DMRforPairs/vignettes/FunctionSchedule.png
DMRforPairs/vignettes/OutputTable.png
DMRforPairs/vignettes/PIK3CG.png
DMRforPairs/vignettes/PIK3CG_annotated.png

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