Summary | Important note | How to obtain phylogentic placement file suitable for analysis with BoSSA ? | Exploration of a reference package | Loading the example data | Some plots | Subsetting the pplace object | Conversion | To a table | To a contingency matrix | To a taxonomy | Make a phyloseq object | Citation | Other resources | On phylogenetic placements | Other R package with a related topic | R packages used by BoSSA

Important notice | Summary | The polerovirus example | Loading the required packages | How many polerovirus sequences are available on NCBI ? | Download all these sequences | Get the genbank informations in XML format | Extract the fasta from the XML | Extract the taxonomy from the XML | Alignement and phylogeny | The Taxonomy | Download the polerovirus taxonomy IDs | The information file | Create the refpkg using taxit | Check the refpkg using rppr | Refpkg stats using BoSSA | Subsample the refpkg | Citation | Other resources | On phylogenetic placements | Other R package with a related topic | On krona charts | R packages used by BoSSA

Cicular tree | Loading of the required packages | Let's use a random tree | Here is the "inside-out" circular tree plot | Plotting interactions | Citation