[Biojava-dev] Isoelectric point calculation alteration??

[mark.schreiber at group.novartis.com]

Hi Jonathan -

The last change was on Tue Jul 22 17:03:20 2003 it extended the search 
range to catch extreme pI values.

- Mark 





"Warren, Jonathan" <Jonathan.Warren at agresearch.co.nz>
Sent by: biojava-dev-bounces at portal.open-bio.org
02/04/2004 10:04 AM

 
        To:     <biojava-dev at biojava.org>
        cc: 
        Subject:        [Biojava-dev] Isoelectric point calculation alteration??


Hi

I've used the proteomics package in biojava recently and found that the
source code I had hasn't been modified since this mail in July last year
http://www.biojava.org/pipermail/biojava-dev/2003-July/000744.html maybe
someone could check that it has been changed as I can't easily access
CVS through our security

Important part of message here - relates to IsoelectricPointCalc.java  :

You're right. The problem is actually in the choice of bounds I used. It
expects an answer between 1-13 for pI. In this case, the answer is
probably beyond 13. I suggest using:- double pI =
BinarySearch.solve(0.3, 13.7, 0.001, computeObj); That's one heck of a
basic protein ;-) Regards, David Huen 



Jonathan Warren


=======================================================================
Attention: The information contained in this message and/or attachments
from AgResearch Limited is intended only for the persons or entities
to which it is addressed and may contain confidential and/or privileged
material. Any review, retransmission, dissemination or other use of, or
taking of any action in reliance upon, this information by persons or
entities other than the intended recipients is prohibited by AgResearch
Limited. If you have received this message in error, please notify the
sender immediately.
=======================================================================
_______________________________________________
biojava-dev mailing list
biojava-dev at biojava.org
http://biojava.org/mailman/listinfo/biojava-dev