Hi.
I have utilized the software get_homologues in order to find ortholog clusters of 4 bacterial strains.
I have obtained a huge table file with the following format:
Strains Group 1 Group 2 Group 3 Group 4 Group 5
Organism_A 1 1 1 1 3
Organism_B 1 1 1 1 0
Organism_C 1 1 1 1 1
Organism_D 1 1 1 1 1
Do you know a venn plotter software that is able to read this kind of table?
Thanks
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written
by
fhsantanna
You could try the VennDiagram package.
R (CRAN)
Have a look at its documentation and examples, to see how it works.
Here is an example: http://rstudio-pubs-static.s3.amazonaws.com/13301_6641d73cfac741a59c0a851feb99e98b.html
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written
by
Deepak Tanwar
Also, have a look at http://www.ats.ucla.edu/stat/r/faq/venn.htm
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written
by
Deepak Tanwar
Thank you. I managed doing it filtering the gene groups using awk. After I utilized the gene group lists in Jvenn (http://bioinfo.genotoul.fr/jvenn/example.html).
Hello fhsantanna, i wonder if you can still remember the awk script that you used for the filtering of the orthomcl report and care to share to me? Thanks
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