[BiO BB] software for sequence mutational analysis
Cook, Malcolm
MEC at Stowers-Institute.org
Tue May 2 10:55:36 EDT 2006
There are many.
Three recommendations:
ABI has a very nice commercial offering for windows called SeqScape
(https://products.appliedbiosystems.com/ab/en/US/adirect/ab?cmd=catNavig
ate2&catID=600582).
Free/open-source is Staden (http://staden.sourceforge.net/) which
has a variety of approaches to gene resequencing for mutation detection
with fairly recent development/improvements. Though it is
cross-platform / opensource, it optionally depends on components which
are/were not available windows - phred for base calling, phrap for
assembly, so I suggest linux for this.
Also often used is a combo of Phred/Phrap/consed. see PolyPhred:
http://droog.mbt.washington.edu/PolyPhred.html
<http://droog.mbt.washington.edu/PolyPhred.html>
Good luck,
Malcolm Cook
Stowers Institute for Medical Research
________________________________
From:
bio_bulletin_board-bounces+mec=stowers-institute.org at bioinformatics.org
[mailto:bio_bulletin_board-bounces+mec=stowers-institute.org at bioinformat
ics.org] On Behalf Of Mhmoud Elhefnawi
Sent: Wednesday, April 26, 2006 8:40 AM
To: bio_bulletin_board at bioinformatics.org
Subject: [BiO BB] software for sequence mutational analysis
Dear colleagues,
I have some sequences closely related that I want to perform
mutationl analysis in an efficient way, locating mutations locations,
frequency of mutations, ...etc..
Is there some package that can help me with that?
Thanks in advance for helping,
Mahmoud
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