This package was build to provide set of tools enabling identification of the top genes and non-coding RNAs (miRNAs, lncRNAs) from expression studies. It can also be applied to arbitrary selected lists of genes mined from the literature. In order to identify best coding and non-coding genes that would serve as key regulators of complex diseases, we developed a key-gene scoring system taking into account their mutual regulation.
You can install the the development version from tar file available on https://github.com/wizbionet/wizbionet
#Some of the dependencies are not downloaded automatically yet.
#Below is the code which will install all of them. Just copy it and paste to your R console
#dependencies
#dplyr (>= 1.0.2), multiMiR (>= 1.8.0), stringr (>= 1.4.0), XML (>= 3.99-0.5),
#OneR (>= 2.2.0), plyr (>= 1.8.6),
#tidyselect (>= 1.1.0), kableExtra (>= 1.1.0), knitr (>= 1.29), rmarkdown (>= 2.3), utils
# 1. installation of the necessary packages, if it will not work download source file from the webpage.
#https://www.bioconductor.org/packages/release/bioc/html/multiMiR.html
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install()
BiocManager::install("multiMiR")
# https://cran.r-project.org/web/packages/OneR/index.html
install.packages("OneR", type = "binary")
#https://cran.r-project.org/web/packages/kableExtra/
install.packages('kableExtra', type = "binary")
# 2 A. You can install package wizbionet from the GitHub use this command:
install.packages("remotes")
remotes::install_github("wizbionet/wizbionet", dependencies ="Depends")
# 2 B.Or install wizbionet from the wizbionet_0.99.0.tar.gz file downloaded from this link:
#https://github.com/wizbionet/wizbionet/raw/master/wizbionet_0.99.0.tar.gz
install.packages("https://github.com/wizbionet/wizbionet/raw/master/wizbionet_0.99.0.tar.gz",
repos = NULL, type = "source",
dependencies =TRUE
)
#Voila, load the package:
library(wizbionet)
#Voila, load the package:
library(wizbionet)
You can install the the development version from directly from GitHub with:
# install.packages("devtools")
devtools::install_github("wizbionet/wizbionet")
"# wizbionet" "# wizbionet"
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