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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ccTutorial")
In most cases, you don't need to download the package archive at all.
ccTutorial
Data package for ChIP-chip tutorial
Bioconductor version: 2.14
This is a data package that accompanies a ChIP-chip tutorial, which has been published in PLoS Computational Biology. The data and source code in this package allow the reader to completely reproduce the steps in the tutorial.
Author: Joern Toedling, Wolfgang Huber
Maintainer: Joern Toedling <joern.toedling at curie.fr>
Citation (from within R,
enter citation("ccTutorial")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ccTutorial")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ccTutorial")
| R Script | A tutorial on how to analyze ChIP-chip readouts using Bioconductor | |
| R Script | Supplement to A tutorial on how to analyze ChIP-chip readouts using Bioconductor | |
| Reference Manual |
Details
| biocViews | ChIPchipData, ExperimentData |
| Version | 1.2.0 |
| License | Artistic-2.0 |
| Depends | R (>= 2.10), Ringo(>= 1.9.8), affy(>= 1.23.4), topGO(>= 1.13.1) |
| Imports | Biobase |
| Suggests | biomaRt, Biobase(>= 2.5.5), xtable |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ccTutorial_1.2.0.tar.gz |
| Windows Binary | ccTutorial_1.2.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | ccTutorial_1.2.0.tgz |
| Mac OS X 10.9 (Mavericks) | ccTutorial_1.2.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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