Hi,
I'm annotating my variants with VEP.
To test, I picked a random rsID and created a test input with all possible options with strand and without strand information.
But I get both 1 and -1 strands in my output and exactly the same amount of rows. Since I don't have transcript information, I also tried --pick_allele
and --pick
options but I still mostly get -1 strand results.
How does providing strand information play a role then?
Input with strand
1 45795027 45795027 C/G +
1 45795027 45795027 C/T +
1 45795027 45795027 G/G +
1 45795027 45795027 T/T +
Input without strand
1 45795027 45795027 C/G
1 45795027 45795027 C/T
1 45795027 45795027 G/G
1 45795027 45795027 T/T