t-test: p=0.434136
Neutral set average density: 1.19197e-05
Different set average density: 2.64189e-05
motif_present gene_set absent present different 990 4 neutral 1947 6
Fisher's exact test: p=0.741115
Binomial GLM: p=0.675304
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.0898 -0.0898 -0.0784 -0.0784 3.4016
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -5.7823 0.4089 -14.142 <2e-16 ***
differentTRUE 0.2709 0.6467 0.419 0.675
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 133.69 on 2946 degrees of freedom
Residual deviance: 133.51 on 2945 degrees of freedom
AIC: 137.51
Number of Fisher Scoring iterations: 8
Binomial GLM adjusted for length: p=0.860495
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.2828 -0.0837 -0.0688 -0.0623 3.5879
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -6.494536 0.565005 -11.495 <2e-16 ***
length 0.002915 0.001227 2.375 0.0175 *
differentTRUE -0.118038 0.671648 -0.176 0.8605
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 133.69 on 2946 degrees of freedom
Residual deviance: 128.91 on 2944 degrees of freedom
AIC: 134.91
Number of Fisher Scoring iterations: 8