Haploview is designed to simplify & expedite the process of haplotype analysis.
Genotyping Console is available for analysis of Genome-Wide Human SNP Array.
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Life Technologies Corporation
TaqMan Genotyper Software is a free SNP genotyping data analysis tool.
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It's a program developed by scientists to determine individual SNP profiles.
This is a great tool for alignment, SNP identification, and PHRAP evaluation.
Beckman Coulter, Inc.
Perform STR, SNP, AFLP and other distinct DNA fragment sizing and identification.