t-test: p=5.90845e-11
Neutral set average density: 0.0040308
Different set average density: 0.00546642
motif_present gene_set absent present different 285 709 neutral 1092 861
Fisher's exact test: p=1.315e-45
Binomial GLM: p=6.08069e-43
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-1.581 -1.078 0.822 1.280 1.280
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.23767 0.04558 -5.215 1.84e-07 ***
differentTRUE 1.14904 0.08364 13.737 < 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: 4072.8 on 2946 degrees of freedom
Residual deviance: 3871.2 on 2945 degrees of freedom
AIC: 3875.2
Number of Fisher Scoring iterations: 4
Binomial GLM adjusted for length: p=0.000246947
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.8748 -0.7776 0.0745 0.8056 1.9253
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -2.1444674 0.0929050 -23.082 < 2e-16 ***
length 0.0112563 0.0005025 22.399 < 2e-16 ***
differentTRUE 0.3755994 0.1024714 3.665 0.000247 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 4072.8 on 2946 degrees of freedom
Residual deviance: 2887.6 on 2944 degrees of freedom
AIC: 2893.6
Number of Fisher Scoring iterations: 6