Use BLAST SRA function with R

Question

I'm an R noob, but can I control the SRA function in NCBI BLAST from command line in R? The NCBI website is notoriously unreliable, and I'd like to be able to manage batches of files.

Answer 1

The ape and BoSSA packages together should do what you want. BoSSA has a blast function that calls the blast API and uses the DNAbin format from ape.