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LFMM_G2E

Using Latent Factor Mixed Models (LFMM) for Genotype to Environment (G2E) association analysis

LFMM tutorial.

Input

  • Input data: lfmm

    Convert VCF file to lfmm file using vcf2lfmm

  • Input data: env

    Convert environmental matrix file to env file using write.env

  • Input parameter: K

    1. Convert VCF file to geno file using vcf2geno
    2. Run snmf with the geno file
    3. plot the snmf result to find the best K

Output