To do this, use any of the normal file type input options followed by the dash - character. It will return information about the file such as the number of variants and the number of individuals in the file.īeginning with vcftools v0.1.12, the program can also take input in from standard input ( stdin). To specify an input file you must use the one of the input options ( -vcf, -gzvcf, or -bcf ) depending on the type of file.įor example, for a VCF file called input_data.vcf the following command could be run: The executable can be run with only an input VCF file without any other options, and will return basic information regarding the contents of the file. The program will return information regarding the version number. Getting linkage disequilibrium statisticsīy default the executable can be found in the bin/ subdirectory.Extended documentation for all of the options can be found on the manual page. This page provides usage examples for the executable module. ![]() A set of tools written in Perl and C++ for working with VCF files.
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