t-test: p=5.33252e-37
Neutral set average density: 0.012706
Different set average density: 0.0181378
motif_present gene_set absent present different 100 894 neutral 606 1347
Fisher's exact test: p=3.78916e-40
Binomial GLM: p=4.84104e-33
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.1432 0.4605 0.4605 0.8620 0.8620
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 0.79876 0.04891 16.33 <2e-16 ***
differentTRUE 1.39178 0.11623 11.97 <2e-16 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 3245.1 on 2946 degrees of freedom
Residual deviance: 3068.0 on 2945 degrees of freedom
AIC: 3072
Number of Fisher Scoring iterations: 4
Binomial GLM adjusted for length: p=0.317474
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.6292 0.0000 0.0668 0.4884 2.0185
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -2.518795 0.144252 -17.46 <2e-16 ***
length 0.028238 0.001371 20.60 <2e-16 ***
differentTRUE 0.151456 0.151507 1.00 0.317
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 3245.1 on 2946 degrees of freedom
Residual deviance: 1890.6 on 2944 degrees of freedom
AIC: 1896.6
Number of Fisher Scoring iterations: 7