To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("rsbml")
In most cases, you don't need to download the package archive at all.
rsbml
R support for SBML, using libsbml
Bioconductor version: 3.0
Links R to libsbml for SBML parsing, validating output, provides an S4 SBML DOM, converts SBML to R graph objects. Optionally links to the SBML ODE Solver Library (SOSLib) for simulating models.
Author: Michael Lawrence <michafla at gene.com>
Maintainer: Michael Lawrence <michafla at gene.com>
Citation (from within R,
enter citation("rsbml")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("rsbml")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("rsbml")
| R Script | Quick start for rsbml | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | GraphAndNetwork, Network, Pathways, Software |
| Version | 2.24.1 |
| In Bioconductor since | BioC 2.1 (R-2.6) |
| License | Artistic-2.0 |
| Depends | R (>= 2.6.0), BiocGenerics(>= 0.3.2), methods, utils |
| Imports | BiocGenerics, graph, utils |
| LinkingTo | |
| Suggests | |
| SystemRequirements | libsbml (==5.10.2) |
| Enhances | |
| URL | http://www.sbml.org |
| Depends On Me | BiGGR |
| Imports Me | |
| Suggests Me | piano, SBMLR |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | rsbml_2.24.1.tar.gz |
| Windows Binary | rsbml_2.24.1.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | rsbml_2.24.1.tgz |
| Mac OS X 10.9 (Mavericks) | rsbml_2.24.1.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
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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