t-test: p=2.67759e-52
Neutral set average density: 0.0326954
Different set average density: 0.0481288
motif_present gene_set absent present different 36 958 neutral 375 1578
Fisher's exact test: p=1.48791e-36
Binomial GLM: p=7.77018e-25
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.5761 0.2716 0.6530 0.6530 0.6530
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 1.43699 0.05745 25.01 <2e-16 ***
differentTRUE 1.84434 0.17923 10.29 <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: 2381.1 on 2946 degrees of freedom
Residual deviance: 2220.1 on 2945 degrees of freedom
AIC: 2224.1
Number of Fisher Scoring iterations: 6
Binomial GLM adjusted for length: p=0.000789238
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.2032 0.0009 0.0600 0.3862 1.7749
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -2.116648 0.174627 -12.121 < 2e-16 ***
length 0.035150 0.002053 17.122 < 2e-16 ***
differentTRUE 0.712057 0.212140 3.357 0.000789 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2381.1 on 2946 degrees of freedom
Residual deviance: 1407.3 on 2944 degrees of freedom
AIC: 1413.3
Number of Fisher Scoring iterations: 8