[BiO BB] SNP analysis program

[Cook, Malcolm]

http://bioinformatics.org/pipermail/bio_bulletin_board/2006-May/003215.h
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> -----Original Message-----
> From: 
> bio_bulletin_board-bounces+mec=stowers-institute.org at bioinform
> atics.org 
> [mailto:bio_bulletin_board-bounces+mec=stowers-institute.org at b
> ioinformatics.org] On Behalf Of Hongyu Zhang
> Sent: Wednesday, February 14, 2007 3:22 PM
> To: bio_bulletin_board at bioinformatics.org
> Subject: [BiO BB] SNP analysis program
> 
> Dear all,
> 
> I am looking for a SNP analysis program, which is good at
> 
> Assemble 
> chromats
> Allow me to edit 
> chromats
> 
> Displays mixed 
> bases
> 
> Displays polymorphisms 
> calls
> 
> 
> 
> We have looked at Polyphred and Sequencher. Polyphred works well in
> Linux/Unix, so it can be wrapped in a shell script to run in 
> batch mode
> processing bulk data. It is also in good compatibility with 
> Phred/Phrap
> and consed. Sequencher has nice GUI and runs on Windows, which is good
> for scientist to do annotation interactively, but I am not 
> sure whether
> it can be run in batch mode.
> 
> If you have any good suggestions, please let me know. Thanks!
> 
> 
>  
> Hongyu Zhang, Ph.D.
> Computational biologist 
>  Ceres Inc., Thousand Oaks, CA
> Cell: 805-405-5394
> Fax: 866-447-8750
> 
> 
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