Fisher test in R to compare percentages of three databases
Hello everyone!
So sorry if this is a very basic question for you, but I am fairly new to both bioinformatics and statistics. I have a 4x15 dataframe with genes and percentage of mutation for every gene in three databases, just like this:
Gene UdeI MSK TCGA
TP53 46 74 53
KRAS 31 51 43
PIK3CA 23 19 15
and need to compare if there is a significant difference between the first database (UdeI) and the others two, so I thought that a Fisher test was the most appropriate statistical test to do this, so I would like to know how can I do it using R. I will really appreciate any help you can give me, Thanks in advance
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German.M.Demidov
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Camilo Andres •
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Camilo Andres •
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Fisher test only tests 2x2 tables =) you need some form of ANOVA here, but moreover, you need to transform percentages into actual counts (in other words, you must know the sample size)