Hello,
I am trying to figure out how I can get the strand orientation of each call made on a snp.vcf file. Does anyone know of a way?
In the end I am looking for this in one file complete file.
chr strt end ref alt strnd_orient(+/-) associated_gene
I have tried using this Bedtools command but was not successful
intersectBed -a Benign.vcf -b ucscRetro_hg19.bed -header -wao 1> test
Thanks,
Nino
I am trying to figure out how I can get the strand orientation of each call made on a snp.vcf file. Does anyone know of a way?
In the end I am looking for this in one file complete file.
chr strt end ref alt strnd_orient(+/-) associated_gene
I have tried using this Bedtools command but was not successful
intersectBed -a Benign.vcf -b ucscRetro_hg19.bed -header -wao 1> test
Thanks,
Nino
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