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Functions to conduct quality control analysis in methylation data

Bioconductor version: Release (3.19)

Functions to analyze methylation data can be found here. Some functions are relevant for single cell methylation data but most other functions can be used for any methylation data. Highlight of this workflow is the comprehensive quality control report.

Author: Divy Kangeyan <divyswar01 at>

Maintainer: Divy Kangeyan <divyswar01 at>

Citation (from within R, enter citation("scmeth")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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Reference Manual PDF


biocViews DNAMethylation, ImmunoOncology, Preprocessing, QualityControl, SingleCell, Software
Version 1.24.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL-2
Depends R (>= 3.5.0)
Imports knitr, rmarkdown, bsseq, AnnotationHub, GenomicRanges, reshape2, stats, utils, BSgenome, DelayedArray(>= 0.5.15), annotatr, SummarizedExperiment(>= 1.5.6), GenomeInfoDb, Biostrings, DT, HDF5Array(>= 1.7.5)
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Suggests BSgenome.Mmusculus.UCSC.mm10, BSgenome.Hsapiens.NCBI.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene,, Biobase, BiocGenerics, ggplot2, ggthemes
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Source Package scmeth_1.24.0.tar.gz
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