**80**wrote:

Hello,

I did PCA analysis using pca function from the LEA r package

It produces these files:

eigenvalue file: genotypes_cultivated.eigenvalues

eigenvector file: genotypes_cultivated.eigenvectors

standard deviation file: genotypes_cultivated.sdev

projection file: genotypes_cultivated.projections

pcaProject file: genotypes_cultivated.pcaProject

From the projection file, I can plot the PC1 and PC2 ....

I wonder if there is a way to calculate the loadings of SNPs to the PC1 or PC2, in another word, I want to calculate the contribution of alleles to the first or second principal component of the PCA analysis.

**7.4k**• written 12 months ago by Hann •

**80**