t-test: p=5.20007e-14
Neutral set average density: 0.0368324
Different set average density: 0.0419057
motif_present gene_set absent present different 13 981 neutral 113 1840
Fisher's exact test: p=9.14176e-10
Binomial GLM: p=2.11397e-07
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.9451 0.1623 0.3453 0.3453 0.3453
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 2.79013 0.09692 28.789 < 2e-16 ***
differentTRUE 1.53349 0.29553 5.189 2.11e-07 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1040.9 on 2946 degrees of freedom
Residual deviance: 1002.0 on 2945 degrees of freedom
AIC: 1006
Number of Fisher Scoring iterations: 7
Binomial GLM adjusted for length: p=0.477097
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.7518 0.0010 0.0375 0.2288 1.1955
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.927499 0.262525 -3.533 0.000411 ***
length 0.044247 0.004066 10.884 < 2e-16 ***
differentTRUE 0.231846 0.326094 0.711 0.477097
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1040.90 on 2946 degrees of freedom
Residual deviance: 680.61 on 2944 degrees of freedom
AIC: 686.61
Number of Fisher Scoring iterations: 10