Kbac
Record added by Jurg Ott (the original Rockefeller list)
Kernal Based Association for Rare Variants
This program implements the KBAC statistic in Liu and Leal (2010). It carries out case-control association testing for rare variants for whole exome association studies. Briefly, consider a gene of length N which harbors M rare variants. Genotype on the M variant sites & the disease status (case/control) are known for each individual. The program takes as input the M-site genotype and disease status (case/control) data files, and computes a p value indicating the significance of association. In order to speed up permutation testing we use an “adaptive” approach to obtain p values.
2010
Gao Wang (email: wang.gaow@columbia.edu)
C++,R
Linux, MacOS
Dajiang J. Liu and Suzanne M. Leal (2010). A Novel Adaptive Method for the Analysis of Next-Generation Sequencing Data to Detect Complex Trait Associations with Rare Variants Due to Gene Main Effects and Interactions. PLoS Genetics
Association testing, rare variants