t-test: p=4.03777e-23
Neutral set average density: 0.0062627
Different set average density: 0.00904681
motif_present gene_set absent present different 182 812 neutral 889 1064
Fisher's exact test: p=1.40502e-50
Binomial GLM: p=9.67363e-45
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-1.843 -1.255 0.636 1.102 1.102
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 0.17969 0.04544 3.955 7.67e-05 ***
differentTRUE 1.31580 0.09376 14.034 < 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: 3862.7 on 2946 degrees of freedom
Residual deviance: 3638.1 on 2945 degrees of freedom
AIC: 3642.1
Number of Fisher Scoring iterations: 4
Binomial GLM adjusted for length: p=0.000845341
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-4.4619 -0.7621 0.1196 0.6925 1.9641
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -2.2115509 0.1075523 -20.563 < 2e-16 ***
length 0.0162862 0.0007408 21.985 < 2e-16 ***
differentTRUE 0.3897524 0.1167796 3.338 0.000845 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 3862.7 on 2946 degrees of freedom
Residual deviance: 2525.7 on 2944 degrees of freedom
AIC: 2531.7
Number of Fisher Scoring iterations: 6