t-test: p=0.46271
Neutral set average density: 0.0191529
Different set average density: 0.0188286
motif_present gene_set absent present different 56 938 neutral 285 1668
Fisher's exact test: p=5.3729e-14
Binomial GLM: p=4.24466e-12
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-2.3985 0.3406 0.5617 0.5617 0.5617
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 1.7669 0.0641 27.566 < 2e-16 ***
differentTRUE 1.0515 0.1518 6.929 4.24e-12 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2111.8 on 2946 degrees of freedom
Residual deviance: 2054.2 on 2945 degrees of freedom
AIC: 2058.2
Number of Fisher Scoring iterations: 5
Binomial GLM adjusted for length: p=0.56183
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-3.1660 0.0220 0.1958 0.5349 1.2279
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.532540 0.138647 -3.841 0.000123 ***
length 0.020729 0.001441 14.381 < 2e-16 ***
differentTRUE -0.100527 0.173285 -0.580 0.561830
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2111.8 on 2946 degrees of freedom
Residual deviance: 1574.0 on 2944 degrees of freedom
AIC: 1580
Number of Fisher Scoring iterations: 8