MEDIPS
MeDIP-Seq data analysis
Bioconductor version: 2.9
MEDIPS was developed for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-Seq). Nevertheless, functionalities like the quality controls may be applied to other types of sequencing data (e.g. ChIP-Seq). MEDIPS adresses several aspects in the context of MeDIP-Seq data analysis.
Author: Lukas Chavez, Joern Dietrich
Maintainer: Lukas Chavez <chavez at molgen.mpg.de>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("MEDIPS")
To cite this package in a publication, start R and enter:
citation("MEDIPS")
Documentation
| R Script | MEDIPS | |
| Reference Manual |
Details
| biocViews | Sequencing, DNAMethylation, CpGIsland, DifferentialExpression, HighThroughputSequencing, ChIPseq, Preprocessing, QualityControl, Visualization, Methylseq |
| Depends | R (>= 2.12.0), BSgenome |
| Imports | Biostrings, BSgenome, graphics, gtools, IRanges, methods, stats, utils |
| Suggests | BSgenome, BSgenome.Hsapiens.UCSC.hg19 |
| System Requirements | |
| License | GPL (>=2) |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Version | 1.4.0 |
| Since | Bioconductor 2.7 (R-2.12) |
Package Downloads
| Package Source | MEDIPS_1.4.0.tar.gz |
| Windows Binary | MEDIPS_1.4.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | MEDIPS_1.4.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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