Man pages for nickilott/MDAT
microbe directory association tester
| build_contingency_table | Build contigensy table for binary variable |
| check_in | Check the proportion of species that are annotated in the... |
| format_identifiers | Format the taxonomic labels in the microbe directory data |
| get_binary_variable | Get a binary variable from microbe directory |
| get_quantitative_variable | Get a quantititative variable from microbe directory |
| get_results | Get the results table |
| plot_binary_variable | Plot binary variable in test and background sets |
| plot_quantitative_variable | Plot quantitative variable in test and background sets |
| plot_results | Plot the results |
| read_database | Read The Microbe Directory database |
| read_list | Read lists for background or foreground sets of species |
| run_associations | Run the associations |
| run_chisquare | Chi-squared test on contingency table |
| run_fisherexact | Fishers exact test |
| run_wilcoxtest | Wilcoxon rank sum test on quantitative variables |
