mCSEA
Methylated CpGs Set Enrichment Analysis
Bioconductor version: 3.24 · Package version: 1.33.0
Identification of diferentially methylated regions (DMRs) in predefined regions (promoters, CpG islands...) from the human genome using Illumina's 450K or EPIC microarray data. Provides methods to rank CpG probes based on linear models and includes plotting functions.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("mCSEA")Details
| Maintainer | Jordi Martorell-Marugán <jmartorellm@gmail.com> |
| Author | Jordi Martorell-Marugán and Pedro Carmona-Sáez |
| License | GPL-2 |
| Downloads rank | 592 |
| Source branch | devel |
| biocViews | DNAMethylation, DifferentialMethylation, Epigenetics, Genetics, GenomeAnnotation, ImmunoOncology, MethylationArray, Microarray, MultipleComparison, Software, TwoChannel |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | mCSEA_1.33.0.tar.gz |
| Windows binary (x86_64) | mCSEA_1.33.0.zip |
| macOS binary (arm64) | mCSEA_1.33.0.tgz |
| macOS binary (x86_64) | mCSEA_1.33.0.tgz |
Dependencies
Depends: R (>= 3.5), mCSEAdata, Homo.sapiens
Imports: biomaRt, fgsea, GenomicFeatures, GenomicRanges, ggplot2, graphics, grDevices, Gviz, IRanges, limma, methods, parallel, S4Vectors, stats, SummarizedExperiment, utils
Suggests: Biobase, BiocGenerics, BiocStyle, FlowSorted.Blood.450k, knitr, leukemiasEset, minfi, minfiData, rmarkdown, RUnit
Reverse dependencies
Suggests Me (1): shinyepico