Add genomic range and ORF 'correction' option #22
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This addresses #19, supplying an option to add genomic ranges to an accession download (e.g. the
from
andto
parameters in the request query string).For large records, this saves a substantial amount of time and bandwidth compared to downloading the whole thing and then subsetting.
Example usage:
While combining multiple accessions with a genomic range triggers an error:
Of course if you are picking arbitrary coordinates like this, it is sometimes the case you'll be in the middle of an ORF. While NCBI won't complain, certain downstream applications I've run into don't like this. Therefore I've also added a
correct
option in the--extended-validation
flag, that would filter these ORFs out. There's also a new unit test for the correction validator (note thatcorrect
does not get run whenall
is specified).