CRISP is a software program to detect SNPs and short indels from pooled sequencing data. CRISP is designed to detect both rare and common variants by utilizing sequence reads from next-generation sequencing of multiple DNA pools. CRISP uses a cross-pool comparison approach to distinguish sequencing errors from rare variants. Note that the method is not designed for variant detection from a single pool. CRISP has been evaluated on several pooled sequencing datasets (human and bacterial) generated using the Illumina sequencing platform. In principle, it should work for sequence data from other sequencing platforms. The method requires each pool to be sequenced using the same sequencing platform.
module spider crisp to find out what environment modules are available for this application.
- HPC_CRISP_DIR - installation directory
- HPC_CRISP_BIN - executable directory