README.md

In customCMPdb: Customize and Query Compound Annotation Database

customCMPdb: Integrating Community and Custom Compound Collections

Introduction

This package serves as a query interface for important community collections of small molecules, while also allowing users to include custom compound collections. At the time of writing, the following community databases are included:

• DrugAge
• DrugBank
• CMAP02
• LINCS

Installation and Loading

customCMPdb is an R/Bioconductor package and can be installed using BiocManager::install().

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("customCMPdb")

To obtain the most recent updates immediately, one can install it directly from GitHub as follows.

devtools::install_github("yduan004/customCMPdb", build_vignettes=TRUE)

After the package is installed, it can be loaded into an R session as follows.

library(customCMPdb)

For detailed description of the package, please refer to the vignette by running

browseVignettes("customCMPdb")

Vignette

The vignette of this package is also available at here

customCMPdb documentation built on Nov. 8, 2020, 5:40 p.m.