Category

Sam/Bam Manipulation


Usage

java -jar picard.jar SplitVcfs I=input.vcf SNP_OUTPUT=snp.vcf INDEL_OUTPUT=indel.vcf STRICT=false


Manual

INPUT (File)    The VCF or BCF input file Required.
SNP_OUTPUT (File)    The VCF or BCF file to which SNP records should be written. The file format is determined by file extension. Required.
INDEL_OUTPUT (File)    The VCF or BCF file to which indel records should be written. The file format is determined by file extension. Required.
SEQUENCE_DICTIONARY (File)    The index sequence dictionary to use instead of the sequence dictionaries in the input files Default value: null.
STRICT (Boolean)    If true an exception will be thrown if an event type other than SNP or indel is encountered Default value: true. This option can be set to 'null' to clear the default value. Possible values: {true, false}


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