Files in alexwailan/maria
Defines sub-lineages of a clonal expansion via an phylogenetic tree.
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/ace_scale_phylo.R
R/boot_pinecone.R
R/collectdata_function.R
R/get_path_distance_function.R
R/itol_label_change.R
R/itol_major_SB_output.R
R/itol_subGroup_output.R
R/majorlineage_function.R
R/node_tips_max_dist.R
R/pinecone.R
R/sublineage_function.R
R/tips_node_zero_dist.R
README.Rmd
README.md
_config.yml
inst/extdata/.DS_Store
inst/extdata/pyjar.staph_ST2371_45_re_itol_7079_1_6_root.joint.tre
inst/vignette-supp/rPineconeLogo_full.png
man/.Rapp.history
man/collectdata.Rd
man/get_path_distance.Rd
man/itol_labels_template.Rd
man/itol_major_SL_output.Rd
man/itol_sublineage_output.Rd
man/majorlineage.Rd
man/node_tips_max_dist.Rd
man/pinecone.Rd
man/sublineage.Rd
man/tips_node_zero_dist.Rd
misc/rPineconeLogo_full.png
pinecone.Rproj
supplementary_material.Rmd
supplementary_material.html
vignettes/bibliography.bib
vignettes/introduction.Rmd
vignettes/major_subleinages_itol_output_2018-07-27.txt
vignettes/rpinecone.tree
vignettes/subgroups_itol_label_output_2018-07-27.txt
vignettes/sublineage_itol_output_2018-07-27.txt
