CMEnt - Characterization of Methylation using positional ENTanglement
CMEnt implements a correlation-based method for identifying Differentially Methylated Regions (DMRs) from genomic seeds, commonly Differentially Methylated Positions (DMPs). The package expands regions around significant seeds considering both statistical significance and biological relevance of methylation changes. It supports array-based (450K, EPIC, EPICv2) and NGS methylation data through tabix-indexed files, provides DMR interaction analysis via motif similarity, and includes comprehensive visualization tools including circos plots and beta value heatmaps.
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dnamethylationdifferentialmethylationepigeneticsstatisticalmethodworkflowstepannotationmethylationarraymotifannotation
4.49 score 13 scriptsRBedMethyl - Disk-backed Representation of ONT bedMethyl Files
Bioconductor-native infrastructure for handling large nanoporetech modkit bedMethyl pileup files from ONT data using HDF5Array and DelayedArray.
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dnamethylationdifferentialmethylationepigeneticsinfrastructuredataimportsoftware
4.48 score 3 scripts 263 downloadsDMRsegaldata - Example DNAm Data for DMRsegal
Data package providing example DNA methylation files used in the DMRsegal vignette and examples. Includes a sorted beta matrix as a tab-delimited, bgzip-compressed file and a matching phenotype table. The data contains 10 healthy and 10 cancer samples, and preprocessing has already been performed on the beta values.
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experimenthubexperimentdatasnpdatasequencingdatamicroarraydatagenomedatapkg
3.90 scoredrugannotR - Coordinate-Level Pharmacological Annotation of Genomic Regions
Maps genomic regions to gene features and then to traceable drug-gene relationships. The package preserves genomic coordinates, relationship categories, evidence scope, and source provenance. It deliberately reports coordinate-level pharmacological relevance rather than predicting treatment response, efficacy, toxicity, or dose.
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annotationdatarepresentationdataimportgenetargetgenomeannotationpharmacogeneticspharmacogenomicsvariantannotation
2.70 score