t-test: p=0.008292
Neutral set average density: 2.28357e-05
Different set average density: 7.19389e-05
motif_present gene_set absent present different 970 24 neutral 1946 7
Fisher's exact test: p=7.03391e-07
Binomial GLM: p=7.80231e-06
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.2211 -0.2211 -0.0847 -0.0847 3.3560
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -5.6276 0.3786 -14.863 < 2e-16 ***
differentTRUE 1.9284 0.4314 4.471 7.8e-06 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 344.06 on 2946 degrees of freedom
Residual deviance: 318.96 on 2945 degrees of freedom
AIC: 322.96
Number of Fisher Scoring iterations: 8
Binomial GLM adjusted for length: p=6.59714e-05
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.3697 -0.1981 -0.0857 -0.0791 3.4116
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -5.8890669 0.4237474 -13.898 < 2e-16 ***
length 0.0012531 0.0008226 1.523 0.128
differentTRUE 1.7730503 0.4443327 3.990 6.6e-05 ***
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 344.06 on 2946 degrees of freedom
Residual deviance: 316.85 on 2944 degrees of freedom
AIC: 322.85
Number of Fisher Scoring iterations: 8