# biodbKegg
[](https://codecov.io/gh/pkrog/biodbKegg?branch=master)
An R Bioconductor package for accessing [KEGG](https://www.kegg.jp/) online
database, based on Bioconductor package/framework
[biodb](https://github.com/pkrog/biodb/).
## Introduction
*biodbKegg* is an an extension package of the *biodb* package.
It allows to connect to KEGG for retrieving entries, searching for entries
by name or mass, and searching for pathways related to compounds.
It implements *biodb* connectors for the following KEGG databases:
* KEGG Compound.
* KEGG Enzyme.
* KEGG Genes.
* KEGG Module.
* KEGG Orthology.
* KEGG Pathway.
* KEGG Reaction.
## Examples
Getting a single entry:
```r
bdb <- boidb::newInst()
kegg <- bdb$getFactory()$createConn('kegg.compound')
entries <- kegg$getEntry(c('C00133', 'C00751'))
bdb$entriesToDataframe(entries)
```
Search by mass:
```r
ids <- kegg$searchForEntries(list(monoisotopic.mass=list(value=64, delta=2.0)),
max.results=10)
```
## Installation
Install the latest stable version using Bioconductor:
```r
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install('biodbKegg')
```
## Documentation
See the introduction vignette:
```r
vignette('biodbKegg', package='biodbKegg')
```
## Citations
* Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28, 27-30 (2000), <https://doi.org/10.1093/nar/28.1.27>.
