Files in magnusnosnes/GeoLineages
Transmission Lineages From Maximum Likelihood Mappings
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
Examples_and_plotting_methods/.DS_Store
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Examples_and_plotting_methods/Tree.Rdata
LICENSE
LineageHomology.Rproj
NAMESPACE
R/FitTransitionMatrix.R
R/Import_export_local_transmission.R
R/Import_local_transmission.R
R/LineageHomology.R
R/Utility.R
R/lineage_plots.R
README.Rmd
README.md
README_files/.DS_Store
README_files/figure-gfm/unnamed-chunk-3-1.png
README_files/figure-gfm/unnamed-chunk-4-1.png
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Rplots.pdf
Simple_test.R
man/EXPM.Rd
man/FitTransition10x.Rd
man/FitTransitionFreeX.Rd
man/LineageHomology.Rd
man/LineageHomology_v2.Rd
man/LineageHomology_w_uncertainty.Rd
man/LineageHomology_w_uncertainty_v2.Rd
man/Summarize_import_export_local_transmission.Rd
man/Summarize_import_local_transmission.Rd
man/axisPhyloDate.Rd
man/find_midedge_ancestral.Rd
man/getAncestors.Rd
man/import_export_local_transmission.Rd
man/import_local_transmission.Rd
man/lineage_growth_cumulative.Rd
man/lineage_info.Rd
man/makeQ.Rd
man/makeQ10X.Rd
man/makeQfreeX.Rd
man/nodeHeights.Rd
man/nodeheight.Rd
man/nodepath_quick.Rd
man/nodepath_quick_w_mrca.Rd
man/nodepath_quick_w_mrca_nodenumber.Rd
man/plot_import_export_local_transmission.Rd
man/plot_importation_local_transmission.Rd
man/reorder_LH.Rd
man/ridgeplot_lineagedensities.Rd
man/to.matrix.Rd
man/treemap_TLs.Rd
man/treemap_lineagehomology.Rd
tests/testthat.R
tests/testthat/test-LineageHomology.R
