EASER: Ensembl Easy Sequence Retriever

Emanuel Maldonado, Imran Khan, Siby Philip, Vítor Vasconcelos, Agostinho Antunes
2013 Evolutionary Bioinformatics  
The rapid advances in genome sequencing technologies have increased the pace at which biological sequence databases are becoming available to the broad scientific community. Thus, obtaining and preparing an appropriate sequence dataset is a crucial first step for all types of genomic analyses. Here, we present a script that can widely facilitate the easy, fast, and effortless downloading and preparation of a proper biological sequence dataset for various genomics studies. This script retrieves
more » ... nsembl defined genomic features, associated with a given Ensembl identifier. Coding (CDS) and genomic sequences can be easily retrieved based on a selected relationship from a set of relationship types, either considering all available organisms or a user specified subset of organisms. The script is very user-friendly and by default starts with an interactive mode if no command-line options are specified.
doi:10.4137/ebo.s11335 pmid:24324324 pmcid:PMC3855309 fatcat:73ktr6rgyrhsxoihnmkq6eqhwe