Package: benchdamic 1.19.0

Introduction | Installation | Data loading | Goodness of Fit | GOF structure | Parametric distributions | Negative Binomial and Zero-Inflated Negative Binomial Models | Zero-Inflated Gaussian Model | Truncated Gaussian Hurdle Model | Dirichlet-Multinomial Mixture Model | Comparing estimated and observed values | Visualization | Mean Differences | RMSE | Discussion about GOF | DA methods | Add a custom DA method | Type I Error Control | TIEC structure | Create mock comparisons | Set up normalizations and DA methods | Add a new DA method later in the analysis | Counting the False Positives | False Positive Rate | False Discovery Rate | QQ-Plot | Kolmogorov-Smirnov test | Log distribution of p-values | Discussion about TIEC | Concordance | Concordance structure | Split datasets | Comparing the concordances | Discussion about Concordance | Enrichment analysis | Enrichment structure | A priori knowledge | Testing the enrichment | Contingency tables | Enrichment plot | Mutual Findings | True and False Positives | Enrichment without direction | Enrichment analysis for simulated data | Discussion about Enrichment | Session Info | References