Question: BED intersects/overlaps output for Venn diagrams - single column
0
gravatar for rbronste
3.4 years ago by
rbronste360
rbronste360 wrote:

Kind of a basic question, but is there a way to represent the output of intersects or dropouts via single columns in a list so as to facilitate making a venn diagram after. Specifically if you have several BED files. Thanks.

bedops bedtools • 1.4k views
ADD COMMENTlink modified 14 days ago by esimonova.me0 • written 3.4 years ago by rbronste360
1
gravatar for Alex Reynolds
3.4 years ago by
Alex Reynolds31k
Seattle, WA USA
Alex Reynolds31k wrote:

BEDOPS works with standard input and output streams, so you can pipe results to standard Unix tools. You can pipe the result to cut with awk to count, or pipe to wc -l to count lines. If you're using bedmap, you can use --countto count mapped elements.

ADD COMMENTlink modified 3.4 years ago • written 3.4 years ago by Alex Reynolds31k
0
gravatar for esimonova.me
14 days ago by
esimonova.me0 wrote:

Try intervene module to visualize it (https://intervene.readthedocs.io/en/latest/modules.html):

intervene venn -i path/to/BED/files/*.bed --output ~/results/path
ADD COMMENTlink written 14 days ago by esimonova.me0
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