Biomartr: genomic data retrieval with R.

ABSTRACT:

Motivation

Retrieval and reproducible functional annotation of genomic data are crucial in biology. However, the current poor usability and transparency of retrieval methods hinders reproducibility. Here we present an open source R package, biomartr , which provides a comprehensive easy-to-use framework for automating data retrieval and functional annotation for meta-genomic approaches. The functions of biomartr achieve a high degree of clarity, transparency and reproducibility of analyses.

Results

The biomartr package implements straightforward functions for bulk retrieval of all genomic data or data for selected genomes, proteomes, coding sequences and annotation files present in databases hosted by the National Center for Biotechnology Information (NCBI) and European Bioi

SUBMITTER: Drost HG 

PROVIDER: S-EPMC5408848 | biostudies-literature | 2017 Apr

REPOSITORIES: biostudies-literature