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| detail.stats | Class "GENOME" |
| detail.stats-method | Several statistics |
| detail.stats-methods | Several statistics |
| F_ST.stats | Class "GENOME" |
| F_ST.stats-method | Fixation Index |
| F_ST.stats-methods | Fixation Index |
| F_ST.stats.2-method | Class "GENOME" |
| GENOME-class | Class "GENOME" |
| get.detail | Class "GENOME" |
| get.detail-method | Several statistics |
| get.detail-methods | Several statistics |
| get.diversity | Class "GENOME" |
| get.diversity-method | Fixation Index |
| get.diversity-methods | Fixation Index |
| get.F_ST | Class "GENOME" |
| get.F_ST-method | Fixation Index |
| get.F_ST-methods | Fixation Index |
| get.linkage | Class "GENOME" |
| get.linkage-method | Linkage Disequilibrium |
| get.linkage-methods | Linkage Disequilibrium |
| get.MKT | Class "GENOME" |
| get.MKT-method | McDonald & Kreitman Test |
| get.MKT-methods | McDonald & Kreitman Test |
| get.neutrality | Class "GENOME" |
| get.neutrality-method | Neutrality Statistics |
| get.neutrality-methods | Neutrality Statistics |
| get.status | Class "GENOME" |
| get.status-method | State of Calculations |
| get.status-methods | State of Calculations |
| get.sum.data | Class "GENOME" |
| get.sum.data-method | Reading alignments and calculating summary data |
| get.sum.data-methods | Reading alignments and calculating summary data |
| getBayes-method | Class "GENOME" |
| getMS-method | Class "GENOME" |
| linkage.stats | Class "GENOME" |
| linkage.stats-method | Linkage Disequilibrium |
| linkage.stats-methods | Linkage Disequilibrium |
| MKT | Class "GENOME" |
| MKT-method | McDonald & Kreitman Test |
| MKT-methods | McDonald & Kreitman Test |
| MS | Coalescent Simulation |
| neutrality.stats | Class "GENOME" |
| neutrality.stats-method | Neutrality Statistics |
| neutrality.stats-methods | Neutrality Statistics |
| popFSTN-method | Class "GENOME" |
| PopGenome | PopGenome |
| readData | Reading alignments and calculating summary data |
| set.populations | Class "GENOME" |
| set.populations-method | Define populations |
| set.populations-methods | Define populations |
| show-method | Class "GENOME" |
| show.slots | Class "GENOME" |
| show.slots-method | Show Slots of class GENOME |
| show.slots-methods | Show Slots of class GENOME |
| sliding.window.transform | Class "GENOME" |
| sliding.window.transform-method | Sliding Window Transformation. |
| sliding.window.transform-methods | Sliding Window Transformation. |
| test.params | Set parameter for Coalescent Simulation. |
| test.params-class | Set parameter for Coalescent Simulation. |
| usage-method | Class "GENOME" |