Man pages for cromanpa94/phruta
Phylogenetic Reconstruction and Time-dating
| acc.retrieve | Retrieve accession numbers and titles for a genbank search |
| acc.table.retrieve | Retrieve accession numbers and titles for a given combination... |
| gene.sampling.retrieve | Retrieve the distribution of genes for given organism in... |
| getListConstraints | Get a list of constraints given a taxonomic dataset |
| sq.add | Add local sequences to previously downloaded sequences |
| sq.aln | Align sequences |
| sq.curate | Curate sequences from genbank |
| sq.partitionfinderv1 | Run Partitionfinder v.1 |
| sq.retrieve.direct | Retrieve sequences from genbank |
| sq.retrieve.indirect | Retrieve sequences from genbank based on a dataset of... |
| SW.phruta | Scholl and Wiens (2016) phylogenies |
| taxonomy.retrieve | Curate sequences from genbank |
| tree.constraint | Tree inference under RAxML |
| tree.dating | Tree dating under treePL or |
| tree.raxml | Tree inference under RAxML |
| tree.roguetaxa | RogueNaRok within phruta |
