MEDIPS
This is the development version of MEDIPS; for the stable release version, see MEDIPS.
All Bioconductor versions of MEDIPS
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7
DNA IP-seq data analysis
Bioconductor version: 3.24 · Package version: 1.65.0
MEDIPS was developed for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-seq). However, MEDIPS provides functionalities for the analysis of any kind of quantitative sequencing data (e.g. ChIP-seq, MBD-seq, CMS-seq and others) including calculation of differential coverage between groups of samples and saturation and correlation analysis.
Author: Lukas Chavez, Matthias Lienhard, Joern Dietrich, Isaac Lopez Moyado
Maintainer: Lukas Chavez <lukaschavez at ucsd.edu>
Citation
From within R, enter citation("MEDIPS"):
Lukas Chavez, Matthias Lienhard, Joern Dietrich, Isaac Lopez Moyado. MEDIPS: DNA IP-seq data analysis. doi:10.18129/B9.bioc.MEDIPS, R package version 1.65.0, https://bioconductor.org/packages/MEDIPS.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("MEDIPS")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.65.0 |
| License | GPL (>=2) |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 2.7 (R-2.12) (15 years) |
| Downloads rank | 496 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | ChIPSeq, CopyNumberVariation, Coverage, CpGIsland, DNAMethylation, DifferentialExpression, Genetics, GenomeAnnotation, Microarray, Preprocessing, QualityControl, SequenceMatching, Sequencing, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/MEDIPS/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MEDIPS")| MEDIPS | R Script | |
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | MEDIPS_1.65.0.tar.gz |
| Windows binary (x86_64) | MEDIPS_1.65.0.zip |
| macOS binary (arm64) | MEDIPS_1.65.0.tgz |
| macOS binary (x86_64) | MEDIPS_1.65.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MEDIPS |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MEDIPS |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.0), BSgenome, Rsamtools
Imports: GenomicRanges, Biostrings, graphics, gtools, IRanges, methods, stats, utils, edgeR, DNAcopy, biomaRt, rtracklayer, preprocessCore
Suggests: BSgenome.Hsapiens.UCSC.hg19, MEDIPSData, BiocStyle