Hi Peter, We agree that it would be useful to have a tool designed to directly extract sequence data from NCBI/Genbank, but there are some practical reasons why we are currently unable to design one. We can offer two work-around suggestions: 1 - For the files available via HTTP/FTP, the most direct option is to paste that URL into the second box on the tool "Get Data -> Upload File from your computer". 2 - For "data sheet" document style Genbank format, it should be possible to design a workflow using the text manipulation tools to parse out sequence (and/or other data). This is an important data source and we are sorry that we cannot help in a more direct way right now, Best, Jen Galaxy team On 9/17/10 6:08 AM, Peter Young wrote:
The Get Data | Get Microbial Data tool is nice, but is limited to a subset of the older genomes among those that are currently available. It should surely be possible to get any accession directly from NCBI, but I don't see a tool to do that. The best I can do is to download a file to my computer and then upload it again to Galaxy. Am I missing something obvious?
On a related point, I don't see GenBank listed as a format for conversion.
Thanks
Peter
-- Jennifer Jackson http://usegalaxy.org