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Minor allele Frequency considering only homozygous sites and Heterozygousity filtering

How to run:

python HomoMAFfiltering.py pathtovcf pathtofilteredvcf mafthreshold heterozygousitythreshold

e.g. python HomoMAFfiltering.py /work/schnablelab/nikees/SAP_imputed.vcf /work/schnablelab/nikees/SAP_imputed_filtered.vcf 0.05 0.05

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