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| Rphylip-package | Rphylip: An R interface for PHYLIP |
| as.phylip.data | Converts objects to protein sequences, phylip.data, or rest.data object |
| as.proseq | Converts objects to protein sequences, phylip.data, or rest.data object |
| as.rest.data | Converts objects to protein sequences, phylip.data, or rest.data object |
| chloroplast | Example datasets |
| clearPath | Set path to the folder containing PHYLIP executables for the current R session |
| cotton | Example datasets |
| opt.Rdnaml | Parameter optimizer for Rdnaml |
| primates | Example datasets |
| primates.bin | Example datasets |
| print.phylip.data | Print method protein sequences, phylip.data, or rest.data object |
| print.proseq | Print method protein sequences, phylip.data, or rest.data object |
| print.rest.data | Print method protein sequences, phylip.data, or rest.data object |
| Rclique | R interface for clique |
| Rconsense | R interface for consense |
| Rcontml | R interface for contml |
| Rcontrast | R interface for contrast |
| Rdnacomp | R interface for dnacomp |
| Rdnadist | R interfaces for dnadist |
| Rdnainvar | R interface for dnainvar |
| Rdnaml | R interfaces for dnaml and dnamlk |
| Rdnamlk | R interfaces for dnaml and dnamlk |
| Rdnapars | R interface for dnapars |
| Rdnapenny | R interface for dnapenny |
| Rdollop | R interface for dollop |
| Rdolpenny | R interface for dolpenny |
| read.protein | Reads protein sequences from file in multiple formats |
| restriction.data | Example datasets |
| Rfitch | R interface for fitch |
| Rgendist | R interface for gendist |
| Rkitsch | R interface for kitsch |
| Rmix | R interface for mix |
| Rneighbor | R interface for neighbor |
| Rpars | R interface for pars |
| Rpenny | R interface for penny |
| Rphylip | Rphylip: An R interface for PHYLIP |
| Rproml | R interfaces for proml and promlk |
| Rpromlk | R interfaces for proml and promlk |
| Rprotdist | R interfaces for protdist |
| Rprotpars | R interface for protpars |
| Rrestdist | R interface for restdist |
| Rrestml | R interface for restml |
| Rseqboot | R interface for seqboot |
| Rthreshml | R interface for threshml |
| Rtreedist | R interface for treedist |
| setPath | Set path to the folder containing PHYLIP executables for the current R session |
| setupOSX | Help set up PHYLIP in Mac OS X |