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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ChromHeatMap")
In most cases, you don't need to download the package archive at all.
ChromHeatMap
Heat map plotting by genome coordinate
Bioconductor version: 2.14
The ChromHeatMap package can be used to plot genome-wide data (e.g. expression, CGH, SNP) along each strand of a given chromosome as a heat map. The generated heat map can be used to interactively identify probes and genes of interest.
Author: Tim F. Rayner
Maintainer: Tim F. Rayner <tfrayner at gmail.com>
Citation (from within R,
enter citation("ChromHeatMap")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ChromHeatMap")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ChromHeatMap")
| R Script | Plotting expression data with ChromHeatMap | |
| Reference Manual |
Details
| biocViews | Software, Visualization |
| Version | 1.18.0 |
| In Bioconductor since | BioC 2.5 (R-2.10) |
| License | Artistic-2.0 |
| Depends | R (>= 2.9.0), BiocGenerics(>= 0.3.2), annotate(>= 1.20.0), AnnotationDbi(>= 1.4.0) |
| Imports | Biobase(>= 2.17.8), graphics, grDevices, methods, stats, IRanges, rtracklayer |
| Suggests | ALL, hgu95av2.db |
| 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 | ChromHeatMap_1.18.0.tar.gz |
| Windows Binary | ChromHeatMap_1.18.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | ChromHeatMap_1.18.0.tgz |
| Mac OS X 10.9 (Mavericks) | ChromHeatMap_1.18.0.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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