Get a sequence from a Genbank ID

[audy]

Is it possible to get a single sequence given a Genbank ID?

I tried:

bionode-ncbi search Genbank AF068820.2

Which returns nothing.

If not, this would be useful 😸

[alanrice]

It isn't possible yet. "assembly" and "SRA" are the only supported NCBI sections at the moment.

Following "assembly" and "SRA" I imagine the syntax to get a sequence would be like

bionode-ncbi download nucleotide AF068820.2

and

ncbi.download('nucleotide', 'AF068820.2')

perhaps?

Search and download in this case would be somewhat redundant given a unique Genbank ID, search would return with just one result.

[bmpvieira]

We can add this using efetch (http://www.ncbi.nlm.nih.gov/books/NBK25499/).
ncbi.download could give the same result as efetch and ncbi.search would return the metadata.

[audy]

Right there would only be download.

Also, pagination. I know the NCBI API has support for this.

ncbi.download('nucleotide', ['AF068820.2', ...])

[bmpvieira]

Moving discussion to #10