Compare Differential CpG Analysis Tools
=======================================
                                                                       
+-----------------------+------------------------------+----------------------------------------------+-------------+
| Program               | Input data                   | Method/Model                                 | Co-variable |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_fisher.py         | Proportion value (RRBS/WGBS) | Fisher's exact test                          | No          |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_logit.py          | Proportion value (RRBS/WGBS) | Logistic regression                          | Yes         |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_bb.py             | Proportion value (RRBS/WGBS) | Beta-binomial regression                     | Yes         |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_ttest.py          | Beta- or M-value (450K/850K) | Student's T-test                             | No          |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_glm.py            | Beta- or M-value (450K/850K) | Generalized linear model                     | Yes         |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_nonparametric.py  | Beta- or M-value (450K/850K) | Mann–Whitney U test or Kruskal-Wallis H test | No          |
+-----------------------+------------------------------+----------------------------------------------+-------------+
| dmc_Bayes.py          | Beta- or M-value (450K/850K) | Bayes estimation                             | No          |
+-----------------------+------------------------------+----------------------------------------------+-------------+

P-value distributions
======================
Compare p-value distributions of *dmc_ttest.py*,  *dmc_glm.py*, *dmc_nonparametric.py* (U test),
and *dmc_Bayes.py*

.. image:: _static/beta_pvalue_dist.png
   :height: 400 px
   :width: 650 px
   :scale: 100 %

Correlation of p-values of *dmc_ttest.py*,  *dmc_glm.py*, *dmc_nonparametric.py* (U test),
and *dmc_Bayes.py* 
  
.. image:: _static/beta_pvalue_corr.png
   :height: 400 px
   :width: 650 px
   :scale: 100 %