Fisher exact test for 2 by 20000 table and for 4 by 20000 table

Question

[Rob]

Hi friends Is this possible to conduct Fisher-exact test for a 2 by 20000 table and 4 by 20000 table? I want this for contingency table of copy number variation.

[brunobsouzaa]

What have you tried already? You can import your table in R, perform fisher.test(data) and see if it works

[Rob]

Thanks brunobsouzaa I did fishe.exact test in r. it gives a p-value for all rows. It is for copy number variation analysis. I dont know how to interpret this one p-value for all genes in my groups. I have 4 groups (4 columns): male-amplification, male deletion, female-amplification, female-deletion and 20000 rows(gene names). Or I dont know if i have to compare female- amplification vs male amplification in a different table and female-deletion vs male-deletion in a different table?

[brunobsouzaa]

Can you post an example of your data? You can perform all comparisons that may work for your project. I would create different tables for different comparisons. "Play" with your data, you may find some interesting results!