Cross-Species Application of Illumina iScan Microarrays for Cost-Effective, High-Throughput SNP Discovery

Microarrays can be a cost-effective alternative to high-throughput sequencing for discovering novel single-nucleotide polymorphisms (SNPs). Illumina’s iScan platform dominates the market, but their commercial microarray products are designed model organisms. Further, outputs data in proprietary format. This cannot easily converted human-readable genotypes or merged with pre-existing data. To address this, we present and validate pipeline facilitate analysis from cross-species application of Illumina microarrays. facilitates generation compatible VCF merging this second comprising derived other samples sources. Our includes custom script, iScanVCFMerge (presented as Python package), which using three great ape genera. We conclude that microarrays rapid, approach SNP discovery non-model surmounts common challenges integrating