generate BED files

Question

[Kai_Qi]

Hi all:

I have generated a tab file using ASpli. I want to use bedtools to get the gene symbol.
1: Can any one teach me how to generate bed files: I have used "cat myfile.tab > myfile.bed" but get an error and can not open my file.

2: should I use the mm10_gtf to generate the bed file for bedtools intersection command.

Thanks,

Cai

[Kevin Blighe]

Hello, what are you trying to do? What files do you currently have, and what is contained within them?

BED format is like this:

chr1 1000 1001
chr1 2000 4000
... ...
chr19 344 888

It specifies genomic intervals.

[GenoMax]

Show output of cat myfile.tab | head -4.