t-test: p=4.62073e-19
Neutral set average density: 0.0301085
Different set average density: 0.0248307
motif_present gene_set absent present different 22 972 neutral 121 1832
Fisher's exact test: p=6.87691e-07
Binomial GLM: p=5.25174e-06
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.7607 0.2116 0.3577 0.3577 0.3577
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 2.71737 0.09386 28.950 < 2e-16 ***
differentTRUE 1.07094 0.23514 4.554 5.25e-06 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1144.3 on 2946 degrees of freedom
Residual deviance: 1118.6 on 2945 degrees of freedom
AIC: 1122.6
Number of Fisher Scoring iterations: 6
Binomial GLM adjusted for length: p=0.436141
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.5408 0.0098 0.1048 0.3320 0.9585
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.036109 0.210222 -0.172 0.864
length 0.028779 0.002722 10.574 <2e-16 ***
differentTRUE -0.200385 0.257324 -0.779 0.436
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1144.30 on 2946 degrees of freedom
Residual deviance: 846.72 on 2944 degrees of freedom
AIC: 852.72
Number of Fisher Scoring iterations: 9