Pe'er has created computational tools for the analysis of high-throughput DNA sequence data.
[1] In particular, he has developed an approach to map copy number variation from whole exome sequencing data.
He has published approaches to quantify hidden relatedness and infer population structure using DNA data.
[2] He has conducted studies on the genetics of complex traits in Ashkenazi Jews, historically a relatively isolated population[3] enabling identification of genetic risk factors for common disorders in all populations.
[4][5] He is generating a comprehensive resource of genetic variants in the population for precision public health.