scmeth
Functions to conduct quality control analysis in methylation data
Bioconductor version: 3.23 · Package version: 1.32.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scmeth") Details
| Maintainer | Divy Kangeyan <divyswar01@g.harvard.edu> |
| Author | Divy Kangeyan <divyswar01@g.harvard.edu> |
| License | GPL-2 |
| Bug Reports | https://github.com/aryeelab/scmeth/issues |
| Downloads rank | 533 |
| Source branch | RELEASE_3_23 |
| biocViews | DNAMethylation, ImmunoOncology, Preprocessing, QualityControl, SingleCell, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | scmeth_1.32.0.tar.gz |
| Windows binary (x86_64) | scmeth_1.32.0.zip |
| macOS binary (arm64) | scmeth_1.32.0.tgz |
| macOS binary (x86_64) | scmeth_1.32.0.tgz |
Dependencies
Depends: R (>= 3.5.0)
Imports: BiocGenerics, bsseq, AnnotationHub, Seqinfo, GenomicRanges, reshape2, stats, utils, BSgenome, DelayedArray (>= 0.5.15), annotatr, SummarizedExperiment (>= 1.5.6), GenomeInfoDb, Biostrings, DT, HDF5Array (>= 1.7.5)
Suggests: knitr, rmarkdown, BSgenome.Mmusculus.UCSC.mm10, BSgenome.Hsapiens.NCBI.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene, org.Hs.eg.db, Biobase, ggplot2, ggthemes
Reverse dependencies
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