CBNplot
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noriakis
Bayesian network plot for the enrichment analysis results
CBNplot: Bayesian network plot for the enrichment analysis results
Plot bayesian network inferred from expression data based on the enrichment analysis results from libraries including clusterProfiler and ReactomePA using bnlearn.
Installation
BiocManager::install("CBNplot")
library(devtools)
install_github("noriakis/CBNplot")
Usage
- Documentation: https://noriakis.github.io/software/CBNplot/
- Web server: ~~https://cbnplot.com~~
- Currently moving to the new server (2024/04/07)
Plot examples
-
The gene-to-gene relationship compared with the reference network.
-
The plot is customizable highliting edges and nodes like hub genes.
-
The example using
MicrobiomeProfiler, thanks to the fix by @xiangpin.
library(MicrobiomeProfiler)
data(Rat_data)
ko.res <- enrichKO(Rat_data)
exp.dat <- matrix(abs(rnorm(910)), 91, 10) %>% magrittr::set_rownames(value=Rat_data) %>% magrittr::set_colnames(value=paste0('S', seq_len(ncol(.))))
exp.dat %>% head
library(CBNplot)
bngeneplot(ko.res, exp=exp.dat, pathNum=1, orgDb=NULL)
- Another customized plot.
noriakis