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#NOTE: Download the Workshop_samples_05-17-23_nocont_homo_common.bim , open it in excel and save it as common_variants.

Example: Phenotypes and correlation analysis

plink --bfile Workshop_samples_05-17-23_nocont_homo_common --allow-no-sex --linear --pheno phenotype.txt --pheno-name phenotype_interested_measure --out res_phenotype_interested_measure

NOTE: do the command described previously for all phenotype variables you have interest in your data. The type of test used (e.g. linear model, logistic, etc) will depend on the type of data you have.

6. Functional analysis

./mutserve annotate --input variantsfile.txt --annotation rCRS_annotation_2020-08-20.txt --output AnnotatedVariants.txt

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