Re: [ccp4bb] CCP4 for bioinformatics?

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Subject: Re: CCP4 for bioinformatics?
From: Ethan Merritt merritt {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-01-21

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Subject: Re: CCP4 for bioinformatics?
From: Gerard DVD Kleywegt gerard {- at -} XRAY {- dot -} BMC {- dot -} UU {- dot -} SE
Date: 2008-01-21

> manipulate some sequences into various forms, and I was imagining a "moleman"
> homolog for bioinformatics (perhaps seqman....?).

as a matter of fact, i did write exactly that program nine years ago -
http://xray.bmc.uu.se/usf/seqman_man.html :-) - not quite a 'ccp4 for
bioinformatics' but indeed a simple sequence-homolog of moleman

it's very limited, though. i mostly use it for generating exam questions for
my bioinformatics courses. many of the ideas (and then some) i had for a suite
of sequence/structure-oriented programs (initially called SEQSYST but
subsequently renamed to SBIN - http://xray.bmc.uu.se/usf/sbin.html) were later
implemented in a much better program called indonesia (see manual at
http://xray.bmc.uu.se/dennis/ - this program used to be called FarOut in an
earlier incarnation) by dennis madsen, patrik johansson, mark harris, susan
arent, and others. since these are all smart kids who know java that program
even has a nice gooey. it is maintained by dennis (dnnm@novonordisk.com)

--dvd

******************************************************************
Gerard J. Kleywegt
[Research Fellow of the Royal Swedish Academy of Sciences]
Dept. of Cell & Molecular Biology University of Uppsala
Biomedical Centre Box 596
SE-751 24 Uppsala SWEDEN

http://xray.bmc.uu.se/gerard/ mailto:gerard@xray.bmc.uu.se
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CCP4bb <-- 2008 <-- January 2008 <-- 21 January 2008

Previous message:
Subject: Re: CCP4 for bioinformatics?
From: Ethan Merritt merritt {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-01-21

Next message:
Subject: protein expression problem
From: Daniel Jin jin_xiechen {- at -} YAHOO {- dot -} COM
Date: 2008-01-22