Package: BAGS 2.47.0

Alejandro Quiroz-Zarate

BAGS: A Bayesian Approach for Geneset Selection

R package providing functions to perform geneset significance analysis over simple cross-sectional data between 2 and 5 phenotypes of interest.

Authors:Alejandro Quiroz-Zarate

# Install 'BAGS' in R:

install.packages('BAGS', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

AnnotationMFGO - List containing a collection of gene symbols with their associated GO term for the Molecular function ontology

On BioConductor:BAGS-2.47.0(bioc 3.21)BAGS-2.46.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

Last updated 2 months agofrom:323f3fef67. Checks:OK: 1 NOTE: 8. Indexed: yes.

Last update: 2018-09-06
Started: 2013-11-01

Help page	Topics
A Bayesian Approach for Geneset Selection (BAGS).	BAGS-package BAGS
List containing a collection of gene symbols with their associated GO term for the Molecular function ontology	AnnotationMFGO
Function that filters the gene sets to work with the desired size.	DataGeneSets
Function obtains the MCMC chains for the parameters of interest that will form their posterior distribution.	Gibbs2
Function obtains the MCMC chains for the parameters of interest that will form their posterior distribution.	Gibbs3
Function obtains the MCMC chains for the parameters of interest that will form their posterior distribution.	Gibbs4
Function obtains the MCMC chains for the parameters of interest that will form their posterior distribution.	Gibbs5
Function that transform the dataset into the required format for the Gibbs sampler.	MCMCDataSet
Function that extracts the gene set definition from a .gmt file.	ReadGMT