t-test: p=1.07552e-18
Neutral set average density: 0.0345381
Different set average density: 0.0400762
motif_present gene_set absent present different 16 978 neutral 151 1802
Fisher's exact test: p=1.742e-13
Binomial GLM: p=7.99612e-10
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.8737 0.1802 0.4012 0.4012 0.4012
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 2.47937 0.08472 29.266 <2e-16 ***
differentTRUE 1.63355 0.26583 6.145 8e-10 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1283.1 on 2946 degrees of freedom
Residual deviance: 1227.0 on 2945 degrees of freedom
AIC: 1231
Number of Fisher Scoring iterations: 6
Binomial GLM adjusted for length: p=0.223737
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.4770 0.0012 0.0442 0.2738 1.2788
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -1.152017 0.233446 -4.935 8.02e-07 ***
length 0.041668 0.003423 12.173 < 2e-16 ***
differentTRUE 0.360824 0.296571 1.217 0.224
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1283.1 on 2946 degrees of freedom
Residual deviance: 827.0 on 2944 degrees of freedom
AIC: 833
Number of Fisher Scoring iterations: 9