SNIP-Seq, developed by Vikas Bansal, Ph.D., is a program that utilizes short-read sequence data from a population of samples to detect SNPs and assign genotypes. The program, implemented in Python, has been evaluated on several population datasets generated by targeted sequencing of several hundred kilobases of the human genome in 50 to 300 samples.
For more information:
Accurate detection and genotyping of SNPs utilizing population sequencing data. Bansal V, Harismendy O, Tewhey R, et. al. Genome Res. 20(4):537-45. 2010 April. PMID: 20150320.