t-test: p=5.20063e-16
Neutral set average density: 0.0152483
Different set average density: 0.0186548
motif_present gene_set absent present different 61 933 neutral 406 1547
Fisher's exact test: p=5.36663e-28
Binomial GLM: p=3.34853e-22
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.3626 0.3559 0.6827 0.6827 0.6827
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 1.33772 0.05576 23.990 <2e-16 ***
differentTRUE 1.38981 0.14344 9.689 <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: 2576.4 on 2946 degrees of freedom
Residual deviance: 2455.2 on 2945 degrees of freedom
AIC: 2459.2
Number of Fisher Scoring iterations: 5
Binomial GLM adjusted for length: p=0.194645
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.6704 0.0047 0.1371 0.5303 1.5895
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -1.430309 0.140295 -10.195 <2e-16 ***
length 0.024970 0.001461 17.090 <2e-16 ***
differentTRUE 0.219513 0.169252 1.297 0.195
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2576.4 on 2946 degrees of freedom
Residual deviance: 1722.3 on 2944 degrees of freedom
AIC: 1728.3
Number of Fisher Scoring iterations: 8