Other packages > Find by keyword >

minimalistGODB  

Build a Minimalist Gene Ontology (GO) Database (GODB)
View on CRAN: Click here


Download and install minimalistGODB package within the R console
Install from CRAN:
install.packages("minimalistGODB")

Install from Github:
library("remotes")
install_github("cran/minimalistGODB")

Install by package version:
library("remotes")
install_version("minimalistGODB", "1.1.0")



Attach the package and use:
library("minimalistGODB")
Maintained by
Barry Zeeberg
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-03-18
Latest Update: 2025-05-04
Description:
Normally building a GODB is fairly complicated, involving downloading multiple database files and using these to build e.g. a 'mySQL' database. Accessing this database is also complicated, involving an intimate knowledge of the database in order to construct reliable queries. Here we have a more modest goal, generating GOGOA3, which is a stripped down version of the GODB that is restricted to human genes as designated by the HUGO Gene Nomenclature Committee (HGNC) (see <https://geneontology.org/>). This can be built in a matter of seconds from 2 easily downloaded files (see <https://current.geneontology.org/products/pages/downloads.html> and <https://geneontology.org/docs/download-ontology/>), and it can be queried by e.g. w<-which(GOGOA3[,"HGNC"] %in% hgncList) where GOGOA3 is a matrix representing the minimalist GODB and hgncList is a list of gene identifiers. This database will be used in my upcoming package 'GoMiner' which is based on my previous publication (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003)<doi:10.1186/gb-2003-4-4-r28>). Relevant .RData files are available from GitHub (<https://github.com/barryzee/GO>).
How to cite:
Barry Zeeberg (2025). minimalistGODB: Build a Minimalist Gene Ontology (GO) Database (GODB). R package version 1.1.0, https://cran.r-project.org/web/packages/minimalistGODB. Accessed 13 Jun. 2026.
Previous versions and publish date:
1.0 (2025-03-18 16:20)
Other packages that cited minimalistGODB R package
View minimalistGODB citation profile
Other R packages that minimalistGODB depends, imports, suggests or enhances
Complete documentation for minimalistGODB
Functions, R codes and Examples using the minimalistGODB R package
Full minimalistGODB package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

sfinx  
Straightforward Filtering Index for AP-MS Data Analysis (SFINX)
The straightforward filtering index (SFINX) identifies true positive protein interactions in a fast ...
Download / Learn more Package Citations See dependency  
snowfall  
Easier Cluster Computing (Based on 'snow')
Usability wrapper around snow for easier development of parallel R programs. This package offers e.g ...
Download / Learn more Package Citations See dependency  
nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
MicroDatosEs  
Utilities for Official Spanish Microdata
Provides utilities for reading and processing microdata from Spanish official statistics with R. ...
Download / Learn more Package Citations See dependency  
kim  
A Toolkit for Behavioral Scientists
A collection of functions for analyzing data typically collected or used by behavioral scientists. ...
Download / Learn more Package Citations See dependency  
RGAN  
Generative Adversarial Nets (GAN) in R
An easy way to get started with Generative Adversarial Nets (GAN) in R. The GAN algorithm was initia ...
Download / Learn more Package Citations See dependency  

27,372

R Packages

233,548

Dependencies

73,054

Author Associations

27,205

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA