I have two files:
ZC3H14 1 VRK1 2 G6PC 79 tp63dn 3 G6PD 174
ZC3H14 1 VRK1 1 G6PC 14 G6PD 1 tp63dn 2
I would like to intersect the two files with
bedtools intersect -a FileA.bed -b FileB.bed -loj however, I do not have a range to intersect the two files with. I basically want to print the number in FileB.bed into FileA.bed for the corresponding gene as so:
ZC3H14 1 1 VRK1 2 1 G6PC 79 14 tp63dn 3 2 G6PD 174 1
However, when I try the bedtool command as above, I get an error. Can I not use bedtools for this type of intersection?
P.S. I need the
-loj because there are some instances in FileA.bed that are not in FileB.bed, however I still want the line in FileA.bed to print.