t-test: p=0.650512
Neutral set average density: 0.000166193
Different set average density: 0.000187267
motif_present gene_set absent present different 953 41 neutral 1906 47
Fisher's exact test: p=0.0115953
Binomial GLM: p=0.010445
Call:
glm(formula = motif_present ~ different, family = binomial, data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.2903 -0.2903 -0.2207 -0.2207 2.7302
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.7026 0.1477 -25.077 <2e-16 ***
differentTRUE 0.5566 0.2173 2.561 0.0104 *
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 791.32 on 2946 degrees of freedom
Residual deviance: 784.91 on 2945 degrees of freedom
AIC: 788.91
Number of Fisher Scoring iterations: 6
Binomial GLM adjusted for length: p=0.0597693
Call:
glm(formula = motif_present ~ length + different, family = binomial,
data = daf)
Deviance Residuals:
Min 1Q Median 3Q Max
-0.4441 -0.2695 -0.2224 -0.2086 2.7937
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.9152150 0.1877585 -20.852 <2e-16 ***
length 0.0010417 0.0005248 1.985 0.0471 *
differentTRUE 0.4283930 0.2275670 1.882 0.0598 .
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 791.32 on 2946 degrees of freedom
Residual deviance: 781.28 on 2944 degrees of freedom
AIC: 787.28
Number of Fisher Scoring iterations: 6