biomartr-package: Genomic Data Retrieval

Description About Author(s)


This package interacts with a suite of web Application Programming Interfaces and FTP sites to perform automated genomic data retieval and annotation information retrieval.


To automate the retrieval process on a meta-genomic scale, this package provides useful interface functions for genomic sequence retrieval and functional annotation retrieval. The major aim of biomartr is to facilitate computational reproducibility and large-scale handling of genomic data for (meta-)genomic analyses.

In detail, biomartr aims to provide users with an easy to use framework to obtain genome, proteome, CDS, GFF (annotation), genome assembly quality, and metagenome project data. Furthermore, an interface to the Ensembl Biomart database allows users to retrieve functional annotation for genomic loci. Users can download entire databases such as


Hajk-Georg Drost [email protected]

biomartr documentation built on July 2, 2018, 1:02 a.m.