Changes

--out {OUTPUT_DIR}/test --run 2 &

--out {OUTPUT_DIR}/test --run 2 &

</pre>  

</pre>  

This command will run the single variant test on the input VCF and PED files, with a minimum MAF threshold of 0.001. &nbsp;The phenotype is "DISEASE" and we are adjusting the analysis with covariates AGE and SEX. &nbsp;The output file directory prefix is {OUTPUT_DIR}/test. &nbsp;Finally, EPACTS will run the analysis in parallel on 2 CPUs.  

This command will run the '''single '''variant test on the input '''VCF '''and '''PED '''files, with a '''minimum MAF''' threshold of 0.001. &nbsp;The '''phenotype '''is "DISEASE" and we are adjusting the analysis with '''covariates '''AGE and SEX. &nbsp;The '''output file directory prefix''' is {OUTPUT_DIR}/test. &nbsp;Finally, EPACTS will run the analysis '''in parallel on 2 CPUs'''.  

== Expected output  ==

== Expected output  ==