README.md
In kwanjeeraw/grinnWeb: Graph database and R package for omics integration
grinnWeb
An R web application for omics integration in the context of human metabolic networks
Version: 1.0 (10 Mar 2015)
Description
grinnWeb is a bioinformatics platform contains a graph database, and the R web application for metabolomics studies.
Based on metabolic networks from KEGG, grinnWeb can generate two types of networks: a network of connected metabolites and an integrated network of metabolites, proteins, genes and pathways, for network analyses and visualization.
Using online grinnWeb
- For online usage under UC Davis network, click here
Using local grinnWeb
- OR for local usage, installation required R and OpenCPU.
- Follow the guidelines to install OpenCPU server locally.
- Require Neo4j 2.1.5 for the grinn internal database (local version), please send us an email for the grinn database files, currently available: Human database.
- Download and then unzip Neo4j server
- Extract and move the grinn database files to the Neo4j server directory
- Start the Neo4j server, for windows: Double-click on %NEO4J_HOME%\bin\Neo4j.bat, for linux: ./bin/neo4j start
for more details see here
- Install grinn R package from github
install.packages("devtools")
library(devtools)
install_github("kwanjeeraw/grinnWeb")
After installation, the following code is to run Grinn locally.
library(grinnWeb)
library(opencpu)
opencpu$browse("library/grinnWeb/www")
Documentation
see homepage
License
GNU General Public License (v3)
kwanjeeraw/grinnWeb documentation built on May 20, 2019, 7:07 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
grinnWeb
An R web application for omics integration in the context of human metabolic networks
Version: 1.0 (10 Mar 2015)
Description
grinnWeb is a bioinformatics platform contains a graph database, and the R web application for metabolomics studies. Based on metabolic networks from KEGG, grinnWeb can generate two types of networks: a network of connected metabolites and an integrated network of metabolites, proteins, genes and pathways, for network analyses and visualization.
Using online grinnWeb
- For online usage under UC Davis network, click here
Using local grinnWeb
- OR for local usage, installation required R and OpenCPU.
- Follow the guidelines to install OpenCPU server locally.
- Require Neo4j 2.1.5 for the grinn internal database (local version), please send us an email for the grinn database files, currently available: Human database.
- Download and then unzip Neo4j server
- Extract and move the grinn database files to the Neo4j server directory
- Start the Neo4j server, for windows: Double-click on %NEO4J_HOME%\bin\Neo4j.bat, for linux: ./bin/neo4j start for more details see here
- Install grinn R package from github
install.packages("devtools") library(devtools) install_github("kwanjeeraw/grinnWeb")
After installation, the following code is to run Grinn locally.
library(grinnWeb)
library(opencpu)
opencpu$browse("library/grinnWeb/www")
Documentation
see homepage
License
GNU General Public License (v3)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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