API for gbradburd/SpaceMix
Runs SpaceMix: a method for inferring and visualizing patterns of population genetic structure
| Global functions | |
|---|---|
| Covariance | Source code |
| MCMC | Source code |
| MCN.frequencies.list | Man page |
| Prior_prob_admix_proportions | Source code |
| Prior_prob_admix_source_locations | Source code |
| Prior_prob_admix_target_locations | Source code |
| Prior_prob_alpha0 | Source code |
| Prior_prob_alpha1 | Source code |
| Prior_prob_alpha2 | Source code |
| Prior_prob_nugget | Source code |
| Update_a0 | Source code |
| Update_a1 | Source code |
| Update_a2 | Source code |
| Update_admixture_proportions | Source code |
| Update_admixture_source_location | Source code |
| Update_admixture_target_location | Source code |
| Update_nugget | Source code |
| admixed.Covariance | Source code |
| check.model.options | Source code |
| curate.count.data | Source code |
| curate.frequency.data | Source code |
| degrees2radians | Source code |
| example.spacemix.map.list | Man page |
| fade.admixture.source.points | Man page Source code |
| fast.run.init.coords | Source code |
| get.cov.standard.error | Source code |
| get.cov.variance | Source code |
| get.credible.ellipse | Source code |
| get.diagn.step | Source code |
| get.mean.sample.size | Source code |
| get.nrmlzd.sample.covariance | Man page Source code |
| get.posterior.location.matrix.from.list | Source code |
| get.procrustes.locations.posterior.list | Source code |
| get.projection.matrix | Source code |
| get.transformation.matrix | Source code |
| get.weighted.mean.frequency | Source code |
| initiate.accept.list | Source code |
| initiate.accept.rates.list | Source code |
| initiate.admix.proportions | Source code |
| initiate.diagns.list | Source code |
| initiate.last.params | Source code |
| initiate.lstps.list | Source code |
| initiate.moves.list | Source code |
| initiate.population.coordinates | Source code |
| initiate.update.function.list | Source code |
| likelihood | Source code |
| load_MCMC_output | Source code |
| make.spacemix.map | Man page Source code |
| make.spacemix.map.list | Man page Source code |
| make.update.all.lstps.function | Source code |
| make.update.diagns.function | Source code |
| make.update.sampled.accept.rates.function | Source code |
| make.update.sampled.lstps.function | Source code |
| mean.center.normalize.frequencies | Source code |
| metropolis_ratio | Source code |
| normal.lnL | Source code |
| plot.admix.arrows | Man page Source code |
| plot.credible.ellipse | Source code |
| print.mcmc.update | Source code |
| project.sample.covariance | Source code |
| propose.new.location.plane | Source code |
| propose.new.location.sphere | Source code |
| query.MCMC.output | Source code |
| query.spacemix.map | Man page Source code |
| radians2degrees | Source code |
| run.spacemix.analysis | Man page Source code |
| save.initial.parameters | Source code |
| spacemix.data | Source code |
| spacemix.example.dataset | Man page |
| spacemix.location.data | Man page |
| spacemix.procrustes | Man page Source code |
| sphere.hop | Source code |
| total_likelihood_freqs | Source code |
| transformed.Covariance | Source code |
| update.lstp | Source code |
| update.matrix | Source code |
| wishart.lnL | Source code |
