Package: BNrich
Type: Package
Title: Pathway Enrichment Analysis Based on Bayesian Network
Version: 0.1.1
Authors@R: c(person("Samaneh","Maleknia",role = c("aut","cre"),email = "maleknias@gmail.com"),person("Mohsen","Namazi",role = "aut"),person("Kaveh","Kavousi",role = c("ctb")),person("Ali","Sharifi-Zarchi",role = c("ctb")),person("Vahid","Rezaei-Tabar",role = c("ctb")))
Maintainer: Samaneh Maleknia <maleknias@gmail.com>
Description: Maleknia et al. (2020) <doi:10.1101/2020.01.13.905448>. A novel pathway enrichment analysis package based on Bayesian network to investigate the topology features of the pathways. firstly, 187 kyoto encyclopedia of genes and genomes (KEGG) human non-metabolic pathways which their cycles were eliminated by biological approach, enter in analysis as Bayesian network structures. The constructed Bayesian network were optimized by the Least Absolute Shrinkage Selector Operator (lasso) and the parameters were learned based on gene expression data. Finally, the impacted pathways were enriched by Fisher’s Exact Test on significant parameters.
biocViews: NetworkEnrichment, GeneExpression, Pathways, Bayesian, KEGG
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
Imports: bnlearn, corpcor, glmnet, graph, stats, utils
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
URL: https://github.com/Samaneh-Bioinformatics/BNrich
BugReports: https://github.com/Samaneh-Bioinformatics/BNrich/issues
NeedsCompilation: no
Packaged: 2020-04-04 07:17:44 UTC; Shawshank
Author: Samaneh Maleknia [aut, cre],
  Mohsen Namazi [aut],
  Kaveh Kavousi [ctb],
  Ali Sharifi-Zarchi [ctb],
  Vahid Rezaei-Tabar [ctb]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2020-04-04 08:50:02 UTC
Built: R 4.6.0; ; 2026-04-27 23:56:59 UTC; unix
