# 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](https://genomics.senescence.info/drugs/) + [DrugBank](https://www.drugbank.ca/) + [CMAP02](https://portals.broadinstitute.org/cmap/) + [LINCS](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE92742) ## Installation and Loading `customCMPdb` is an R/Bioconductor package and can be installed using `BiocManager::install()`. ```r 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. ```r devtools::install_github("yduan004/customCMPdb", build_vignettes=TRUE) ``` After the package is installed, it can be loaded into an R session as follows. ```r library(customCMPdb) ``` For detailed description of the package, please refer to the vignette by running ```r browseVignettes("customCMPdb") ``` ## Vignette The vignette of this package is also available at [here](https://www.bioconductor.org/packages/release/bioc/vignettes/customCMPdb/inst/doc/customCMPdb.html)