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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("matchBox")
In most cases, you don't need to download the package archive at all.
matchBox
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. distinct genomic experiments). The package includes Correspondence-At-the-TOP (CAT) analysis.
Bioconductor version: 2.14
The matchBox package enables comparing ranked vectors of features, merging multiple datasets, removing redundant features, using CAT-plots and Venn diagrams, and computing statistical significance.
Author: Luigi Marchionni <marchion at jhu.edu>, Anuj Gupta <Anuj Gupta <agupta52 at jhu.edu>
Maintainer: Luigi Marchionni <marchion at jhu.edu>, Anuj Gupta <Anuj Gupta <agupta52 at jhu.edu>
Citation (from within R,
enter citation("matchBox")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("matchBox")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("matchBox")
| R Script | Working with the matchBox package | |
| Reference Manual |
Details
| biocViews | Annotation, Microarray, MultipleComparison, Software, Visualization |
| Version | 1.6.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) |
| License | Artistic-2.0 |
| Depends | R (>= 2.8.0) |
| Imports | |
| Suggests | |
| 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 | matchBox_1.6.0.tar.gz |
| Windows Binary | matchBox_1.6.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | matchBox_1.6.0.tgz |
| Mac OS X 10.9 (Mavericks) | matchBox_1.6.0.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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