Hello there,
After days of searching around I can't find a simple step-by-step guide
on how to install biomart locally including databases. Could you point
me to such a document if what I want to do is possible at all?
I have also read the biomart 0.8 install manual, I have managed to set
up a webserver, I can make it read data from local source but I can't
find how to automatically download and install these sources locally.
If you can contribute more, then preferably:
1) I would like to know how to select a database and transfer it locally
to my own, local mysql server, without having to go to each vendor's
website download their files and install it to my local db. I mean is
there a click-and-install feature in *mart-configurator* or something? I
visualise this as I give my local mysql password and the databses are
install automatically there.
2) I would like to install only a small subset of databases locally -
the ones that i use a lot.
3) Ideally, I would like with a few clicks to update the biomart
databases which are installed locally, every few weeks/months.
My aim right now is to convert between ensembl, uniprot, hugo protein
IDs and get GO terms for each protein.
Thanking you in advance,
andreas
--
Andreas Hadjiprocopis (HSO,CMB,H+M)
Institute of Cancer Research London / +44 207 1535076
'Let the biologists be biologists and the computer scientists computer
scientists'.
The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company
Limited by Guarantee, Registered in England under Company No. 534147 with its
Registered Office at 123 Old Brompton Road, London SW7 3RP.
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