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- ontoCAT
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ontoCAT")
In most cases, you don't need to download the package archive at all.
ontoCAT
Ontology traversal and search
Bioconductor version: 2.14
The ontoCAT R package provides a simple interface to ontologies described in widely used standard formats, stored locally in the filesystem or accessible online. The full version of ontoCAT R package also supports searching for ontology terms across multiple ontologies and in major ontology repositories, as well as a number of advanced ontology navigation functions: www.ontocat.org/wiki/r
Author: Natalja Kurbatova, Tomasz Adamusiak, Pavel Kurnosov, Morris Swertz, Misha Kapushevsky
Maintainer: Natalja Kurbatova <natalja at ebi.ac.uk>
Citation (from within R,
enter citation("ontoCAT")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ontoCAT")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ontoCAT")
| R Script | ontoCAT package | |
| Reference Manual | ||
| Text | LICENSE |
Details
| biocViews | Classification, DataRepresentation, Software |
| Version | 1.16.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) |
| License | Apache License 2.0 |
| Depends | rJava, methods |
| Imports | |
| Suggests | |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | RMassBank |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ontoCAT_1.16.0.tar.gz |
| Windows Binary | ontoCAT_1.16.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | ontoCAT_1.16.0.tgz |
| Mac OS X 10.9 (Mavericks) | ontoCAT_1.16.0.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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