fishers_exact_test icon indicating copy to clipboard operation
fishers_exact_test copied to clipboard

Published 20 hours ago • verified publisher icon brentp

fishers test

Open timase2021 opened this issue 2 years ago • 0 comments

Hello everyone,

I can not move in my work being weak in statistics I hope to find help once again on github !!!

I have a set of two COGs functions with the number of occurrences for the same species. the first represent the annotation of the total genom and the second are sequences involved in the production of a substance

my goal is to make a comparison between the two by an enrichment test

not having any knowledge in statistics I did some research and I found the fisher extract test with R is fisher extract test adequate for the test I want and for my data? Could someone help me with the approach to take with this test, I found some commands to use on R but the tables are only composed of 2 colomns and 2 lignes, I have more data then 2*2 my data:

COG_category | totalGenom | sequences_candidates none | 4824 | 240 A | 555 | 9 B | 188 | 3 C | 925 | 5 D | 290 | 8 E | 687 | 12 F | 211 | 3 G | 589 | 9 H | 311 | 1 I | 463 | 6 J | 622 | 5 K | 746 | 38 L | 1189 | 23 M | 263 | 10 N | 12 | 0 O | 1351 | 49 P | 888 | 9 Q | 486 | 21 S | 3702 | 94 T | 1561 | 98 U | 678 | 27 V | 127 | 11 W | 17 | 4 Y | 30 | 0 Z | 210 | 4

thanks in advance cheers

timase2021 avatar Sep 30 '21 10:09 timase2021