[BiO BB] software for sequence mutational analysis

[Cook, Malcolm]

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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