t-test: p=9.17947e-27
Neutral set average density: 0.00956449
Different set average density: 0.0153528
motif_present gene_set absent present different 185 809 neutral 981 972
Fisher's exact test: p=1.6244e-65
Binomial GLM: p=4.13759e-57
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-1.8338 -1.1735 0.6418 1.1813 1.1813
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.009217 0.045257 -0.204 0.839
differentTRUE 1.484660 0.093218 15.927 <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: 3956.1 on 2946 degrees of freedom
Residual deviance: 3662.7 on 2945 degrees of freedom
AIC: 3666.7
Number of Fisher Scoring iterations: 4
Binomial GLM adjusted for length: p=1.47929e-05
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.4032 -0.6249 0.0371 0.5265 2.2839
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.1197892 0.1300995 -23.980 < 2e-16 ***
length 0.0210089 0.0008932 23.520 < 2e-16 ***
differentTRUE 0.5350293 0.1235135 4.332 1.48e-05 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 3956.1 on 2946 degrees of freedom
Residual deviance: 2208.3 on 2944 degrees of freedom
AIC: 2214.3
Number of Fisher Scoring iterations: 7