On Sun, 17 Feb 2002, Gabriel lu wrote: > I am wondering whether there is an open source for > retrieving data from public sequence banks (such as > GenBank) and storing the data into a relational > database such as an Ms Access. If any, can the binary > query such as human and Golgi and proteins be > accepted? If none, I am interested in the development
We don't have software as such to do the task exactly as you describe but we do have components with which you could construct such a program. For example, we do have file format readers of various formats that you could use to read in the release you have downloaded. In BioSQL you would have a schema and some basic methods to set up a database (though not Access specifically - it is more likely to be mySQL, Postgres and poosibly Oracle. It is not difficult to extend it to other SQL databases.). > of such a program. But I am new to biojava. Could you > please make some suggestion for me to start? Any idea > concerning this will be appropriated. > If you already know SQL, I would suggest familiarising yourself with the sequence model in BioJava and also with the SeqIO parts. I haven't used BioSQL myself yet but I should expect it will be very nice indeed when the developers are through with it. You could also attend the bootcamp at the EBI next month if you want a quick start. I found this route much less effort myself. Regards, David Huen _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
