DAMEfinder
Finds DAMEs - Differential Allelicly MEthylated regions
Bioconductor version: 3.24 · Package version: 1.25.0
'DAMEfinder' offers functionality for taking methtuple or bismark outputs to calculate ASM scores and compute DAMEs. It also offers nice visualization of methyl-circle plots.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DAMEfinder")Details
| Maintainer | Stephany Orjuela <sorjuelal@gmail.com> |
| Author | Stephany Orjuela [aut, cre] (ORCID: <https://orcid.org/0000-0002-1508-461X>), Dania Machlab [aut], Mark Robinson [aut] |
| License | MIT + file LICENSE |
| Bug Reports | https://github.com/markrobinsonuzh/DAMEfinder/issues |
| Downloads rank | 572 |
| Source branch | devel |
| biocViews | Coverage, DNAMethylation, DifferentialMethylation, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | DAMEfinder_1.25.0.tar.gz |
| Windows binary (x86_64) | DAMEfinder_1.25.0.zip |
| macOS binary (arm64) | DAMEfinder_1.25.0.tgz |
| macOS binary (x86_64) | DAMEfinder_1.25.0.tgz |
Dependencies
Depends: R (>= 4.0)
Imports: stats, Seqinfo, GenomicRanges, IRanges, S4Vectors, readr, SummarizedExperiment, GenomicAlignments, stringr, plyr, VariantAnnotation, parallel, ggplot2, Rsamtools, BiocGenerics, methods, limma, bumphunter, Biostrings, reshape2, cowplot, utils
Suggests: BiocStyle, knitr, rmarkdown, testthat, rtracklayer, BSgenome.Hsapiens.UCSC.hg19