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-   -   vegetative bud sequences in ncbi databases (http://www.molecularstation.com/forum/bioinformatics/1592-vegetative-bud-sequences-ncbi-databases.html)

gazits 06-05-2007 05:22 AM

vegetative bud sequences in ncbi databases
 
Hi everybody,

I'm trying to find out how can I compare a list of probes against a database to see what the frequencies are of probes representing vegetative bud among them??

Does anybody know how to do this?

Thank you.

ani1977 06-06-2007 08:59 AM

Re: vegetative bud sequences in ncbi databases
 
Quote:

Originally Posted by gazits (Post 3907)
Hi everybody,

I'm trying to find out how can I compare a list of probes against a database to see what the frequencies are of probes representing vegetative bud among them??

Does anybody know how to do this?

Thank you.

Do a BLAST with blast [Only registered and activated users can see links. Click Here To Register...]client [blastcl3 download from ftp://ftp.ncbi.nih.gov/blast/network/netblast/ and then parse the result with bioperl. You need PERL for this. Check out PERL [Only registered and activated users can see links. Click Here To Register...] and tutorial [Only registered and activated users can see links. Click Here To Register...]to get going. For parsing the results of blast output, follow tutorial at [Only registered and activated users can see links. Click Here To Register...] .
All this can be automated with Taverna as mentioned in [Only registered and activated users can see links. Click Here To Register...] .


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