GitHub - IGVF/rigvf: R Interface to the Impact of Genomic Variation on Function ('IGVF') Data Portal (original) (raw)

rigvf: IGVF Catalog from R

rigvf provides access the Impact of Genomic Variation on Function (IGVF) Catalog from within R/Bioconductor, allowing integration with Bioconductor resources, classes, and methods.

Only limited functionality is currently implemented, mostly centered around associations among genetic variants, genomic elements, and genes.

Installation

Install the development version fromGitHub with:

install.packages("BiocManager") # if not installed

BiocManager::install("IGVF/rigvf")

Using `rigvf`

See the Accessing data from the IGVF Catalog vignette for basic use.

See ?catalog_queries and ?db_queries for example functions for accessing IGVF data through the Catalog API and ArangoDB API, respectively.

Data license