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Here <font face=Courier>refPanel.m3vcf</font> is the reference panel used in M3VCF format (e.g. 1000 Genomes), <font face=Courier>targetStudy.vcf</font> is the phased GWAS data in VCF format, and <font face=Courier>testRun</font> is the prefix for the output files.
Here <font face=Courier>refPanel.m3vcf</font> is the reference panel used in M3VCF format (e.g. 1000 Genomes), <font face=Courier>targetStudy.vcf</font> is the phased GWAS data in VCF format, and <font face=Courier>testRun</font> is the prefix for the output files.
=== Full List of Options ===
Users can always type the following for further support:
minimac4 --help
'''Please see [[Minimac4 Documentation | Minimac4 Documentation]] for detailed explanation of all available options.'''
=== Convert VCF to M3VCF ===
=== Convert VCF to M3VCF ===
--prefix testRun \
--prefix testRun \
--cpus 5
--cpus 5
= Reference Panels for Download =
= Reference Panels for Download =
