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DESCRIPTION
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DESCRIPTION
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Package: scmeth
Type: Package
Title: Functions to conduct quality control analysis in methylation data
Version: 1.5.1
Author: Divy Kangeyan <divyswar01@g.harvard.edu>
Maintainer: Divy Kangeyan <divyswar01@g.harvard.edu>
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)
Suggests:
BSgenome.Mmusculus.UCSC.mm10,
BSgenome.Hsapiens.NCBI.GRCh38,
TxDb.Hsapiens.UCSC.hg38.knownGene,
org.Hs.eg.db,
Biobase,
BiocGenerics,
ggplot2,
ggthemes
Description: 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.
biocViews: DNAMethylation, QualityControl, Preprocessing, SingleCell, ImmunoOncology
BugReports: https://github.com/aryeelab/scmeth/issues
License: GPL-2
LazyData: TRUE
RoxygenNote: 6.1.1
VignetteBuilder: knitr