Browse the documentation, check out file format specifications or learn how to detect inversions in 256 Anopheles genomes using WinPCA in a hands-on tutorial. Four additional use cases that are featured in the WinPCA preprint are available here.

          Example of a WinPCA analysis: Chromosome-scale inversions in benthic Malawi cichlids (from our recent preprint)

A complementary script to compute and visualize (non-windowed) principal components from hard-called genotypes in a VCF file is available here ('vcf_pca.py').