java -jar GenomeAnalysisTK.jar -T RandomlySplitVariants -R reference.fasta -V input.vcf -o1 output_1.vcf -o2 output_2.vcf
| Argument name(s) | Default value | Summary | |
|---|---|---|---|
| Required Inputs | |||
| --variant  -V | NA | Input VCF file | |
| Optional Outputs | |||
| --out1 Â -o1 | stdout | File #1 to which variants should be written | |
| --out2 Â -o2 | NA | File #2 to which variants should be written | |
| Optional Parameters | |||
| --fractionToOut1 Â -fraction | 0.5 | Fraction of records to be placed in out1 (must be 0 >= fraction | |
| --numOfOutputVCFFiles  -N | -1 | number of output VCF files. Only works with SplitToMany = true | |
| --prefixForAllOutputFileNames  -baseOutputName | NA | the name of the output VCF file will be: | |
| Optional Flags | |||
| --splitToManyFiles  -splitToMany | false | split (with uniform distribution) to more than 2 files. numOfFiles and baseOutputName parameters are required | |