# Integrator of Bioinformatics Resources

## Documentation for package ‘BioInstaller’ version 0.3.7

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

BioInstaller-package | This package is a new platform to construct interactive and reproducible biological data analysis applications based on R language, which includes the R functions and R Shiny application, REST APIs.
BioInstaller | This package is a new platform to construct interactive and reproducible biological data analysis applications based on R language, which includes the R functions and R Shiny application, REST APIs.
change.info | Update biologly softwares infomation of system
conda | Wrapper function of conda
conda.env.create | Wrapper function of 'conda env create', create an environment based on an environment file
conda.env.list | Wrapper function of 'conda env list', list the Conda environments
conda.list | Wrapper function of 'conda list', list linked packages in a conda environment.
copy_configs | Function to copy the default configuration file of BioInstaller
copy_plugins | Function to copy the default plugins of BioInstaller
crawl.all.versions | A function can be used to craw all source code from nongithub.cfg stored information
del.info | Delete biologly softwares infomation of system
docker.pull | Use docker to pull image
docker.search | Search softwares docker infomation in BioInstaller docker database
get.info | Show biologly softwares infomation of system
get.meta | Get meta information of BioInstaller collected sources, such as database, GitHub source, non-GitHub source, web source
get.meta.files | Get all BioInstaller meta files path, such as database, GitHub source, non-GitHub source, web source
install.bioinfo | Download and install biology software or database
install.github | Install or download softwares from Github
install.nongithub | Install or download softwares from non-Github Web site
is.biosoftwares.db.active | Test active configuration file
new.bioinfo | Create new BioInstaller items to github forum
set.biosoftwares.db | Set BIO_SOFWARES_DB_ACTIVE as the BioInstaller db
set_shiny_workers | Function to set shiny workers for background service
show.installed | Show all installed bio-softwares in system
spack | Wrapper function of spack
spack.list | Wrapper function of 'spack list', list and search available packages
web | Function to run BioInstaller shiny APP service