Dear All I have a VCF file of 250 genotypes developed using HaplotypeCaller at GATK tools. now I want to split a set of 200 individuals as new vcf file. Is is possible using GALAXY. Kindly help me in this regard by suggesting a workable solution if possible in galaxy.
Hi This tool should do it 'VCFselectsamples: Select samples from a VCF dataset'. there are others. It may help when looking for tools to be aware of VCF terminology specifically that individuals = samples. 'genotypes' could mean a few different things,
Personally I use this galaxy tool 'Select Variants from VCF files' but this is not available on Usegalaxy.org (it is part of GATK package but it is a stand alone tool). Cheers