Question: How to draw venn diagram for two CNV lists?
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gravatar for lyz10302012
5.3 years ago by
lyz10302012330
China
lyz10302012330 wrote:

I want to draw the venn diagram for two CNV lists. I use a 1-bp reciprocal overlap criterion to declare two CNVs are same.

My question is if one element in list 1 overlaps with multi elements in list 2, how can I interpret intersect?

i.e.

Size of list1: 100

Size of list2: 200

10 CNVs in list1 overlaps with 20 cnvs in list2

Here my question is how to determine the intersect, is it 10 ,20 or both? How can I draw the venn diagram?

tool venn • 3.1k views
ADD COMMENTlink modified 18 months ago by lieven.sterck7.0k • written 5.3 years ago by lyz10302012330

10 CNVs in list1 overlaps with 20 cnvs in list2 It means there are duplicates in list. While drawing Venn we consider only unique values. Hope I answered your question

ADD REPLYlink written 18 months ago by sysbiocoder180
1
gravatar for Jie Ping
5.3 years ago by
Jie Ping30
China
Jie Ping30 wrote:

The website may help you.

http://bioinfogp.cnb.csic.es/tools/venny/index.html

ADD COMMENTlink written 5.3 years ago by Jie Ping30

Venny was down today... In any event, I would highly recommend I would highly recommend VENDIS: 

http://kislingerlab.uhnres.utoronto.ca/projects/VennDIS_v1.0.zip

It just came out and it's really quite good!

ADD REPLYlink written 5.0 years ago by InterestedScientist30
1
gravatar for Rodons
5.3 years ago by
Rodons10
European Union
Rodons10 wrote:

You can also use biovenn (http://www.cmbi.ru.nl/cdd/biovenn/index.php), which will also recognize your entries and will link them.

ADD COMMENTlink written 5.3 years ago by Rodons10
1
gravatar for David Westergaard
5.3 years ago by
Copenhagen, Denmark
David Westergaard1.4k wrote:

I am not a CNV expert (or genomics, for that matter), but I think it boils down to the question you are asking. Are you counting the number of overlapping CNVs when comparing sample 1 to sample 2, or sample 2 to sample 1? I think both would be fine, as long as you make sure to write which comparison you are making.

ADD COMMENTlink written 5.3 years ago by David Westergaard1.4k
0
gravatar for Nandini
5.3 years ago by
Nandini840
Nandini840 wrote:

You can easily do it in R but if you want to opt for a software, I find this tool very useful http://omics.pnl.gov/software/venn-diagram-plotter

ADD COMMENTlink written 5.3 years ago by Nandini840
0
gravatar for Malachi Griffith
5.3 years ago by
Washington University School of Medicine, St. Louis, USA
Malachi Griffith18k wrote:

Here is a good StackOverflow post on creating Venn diagrams in R:

http://stackoverflow.com/questions/1428946/venn-diagrams-with-r

ADD COMMENTlink written 5.3 years ago by Malachi Griffith18k
0
gravatar for lyz10302012
5.3 years ago by
lyz10302012330
China
lyz10302012330 wrote:

Here my question is how to determine the intersect, is it 10 or 20?

ADD COMMENTlink written 5.3 years ago by lyz10302012330
0
gravatar for shalin
18 months ago by
shalin30
shalin30 wrote:

Its probably best to use use a Venn Diagram Maker like Creately. Its an online diagramming & collaboration software to draw Venn diagrams. There are all the objects and shapes necessary to create Venn and Euler diagrams with 100s of templates and examples to be used freely.

ADD COMMENTlink written 18 months ago by shalin30
0
gravatar for lieven.sterck
18 months ago by
lieven.sterck7.0k
VIB, Ghent, Belgium
lieven.sterck7.0k wrote:

and here is another alternative (draws up to 6 intersections): Draw Venn

ADD COMMENTlink written 18 months ago by lieven.sterck7.0k
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