Hi, I want to intersect my vcf files with the enhancer database bed file; so I used bedtools and print:
bedtools intersect -a enhancers.bed -b examples.vcf
then it showed
Error: Type checker found wrong number of fields while tokenizing data line.
Do the bed or vcf files contain too many fields? But I don't want to cut the columns, or maybe I should annotate my vcf file?
The vcf file looks like:
#CHROM POS ID REF ALT QUA FILTER AA ....... (so many columns) (and datas below, actually there is no header in the vcf file)
And the bed file looks like:
chr1 839741 840250 chr1:839741-840250 24 . 839787 839788 0,0,0 2 20,436 0,73
Can anyone help me to solve the problem?