Hello,
First of all I'm pretty new to Taverna. I already downloaded and
installed version 2 and played a bit with it. I even managed to get it
working through our dreaded proxy server ;-)
Now I've been thinking of using Taverna to semi-automate some data
extractions from Genbank.
This is what I would like to do:
1) input list = a list of GI or accession numbers
2) do a search in the NCBI nucleotide database for this list of GI
numbers
3) retrieve the results in Genbank format
4) extract some data fields out of the Genbank records (for example:
"product" or "info" fields
5) finally create a csv file with the following columns: GI number,
"product" field, "info" field
Is it difficult to do this with Taverna? I guess I will have to register
the NCBI Entrez web services as activities, probably the ESearch and
EFetch utilities?
Has anyone created a workflow like this before?
Thanks,
Matthias
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