7.2 testHardyWeinberg

Testing for Hardy-Weinberg equilibrium across multiple populations

testHardyWeinbergHardy assesses whether the population is in genetic equilibrium. The Hardy-Weinberg equilibrium (HWE) principle describes the expected distribution of genetic variation in a population that is not undergoing any evolutionary forces such as selection, mutation, migration, or genetic drift.

7.2.1 Parameters

7.2.1.1 Input

--vcf Input_vcf_file.vcf.gz

Input VCF file

7.2.1.2 Engine

• General
• Population parameters
• Genome

7.2.2 Output

*_HWTest.txt.gz

file containing HW test results

7.2.3 Usage Example

# Simulate 5 samples in Hardy–Weinberg Equilibrium and write vcf file
atlas simulate --vcf --type HW --sampleSize 5

# Test for Hardy Weinberg equilibrium
atlas testHardyWeinberg --vcf ATLAS_simulations.vcf.gz