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====== Selecting a specific region in a vcf file ======

In order to obtain a subset of the vcf file based on genome region please use the following command.
Original documentation [[http://samtools.sourceforge.net/tabix.shtml|here]] 

<code>
module load tabix

bgzip Genotypes2015.annotated.vcf

tabix -p vcf /home/mkatari/Genotypes2015.annotated.vcf.gz

tabix -p vcf /home/mkatari/Genotypes2015.annotated.vcf.gz Chromosome11:5532312-5532957
</code>