README.md

In yduan004/compoundCollection: Cutsomize and Query Compound Annotation Database

customCompoundDB: Customize and Query Compound Annotation Database

Introduction

This software package is the customization and query interface for the annotation SQLite database from the corresponding compoundCollectionData package. It contains utilities to query the compound annotations from DrugAge, DrugBank, CMAP02, and LINCS resources by providing ChEMBL ids of the query compounds. It also supports adding customized compound annotations to the annotation SQLite database.

Installation and Loading

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

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

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

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

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

library(customCompoundDB)

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

browseVignettes("customCompoundDB")

Vignette

The vignette of this package is also available at here

yduan004/compoundCollection documentation built on Sept. 20, 2020, 5:59 a.m.