Files in sebastianduchene/NELSI
NELSI: Nucleotide EvoLution Simulator

.ipynb_checkpoints/get_ancestor_nodes-checkpoint.ipynb
DESCRIPTION
Ho_et_al_examples/README.Rnw
Ho_et_al_examples/README.html
Ho_et_al_examples/README.md
Ho_et_al_examples/README.md~
Ho_et_al_examples/README.rmd
Ho_et_al_examples/README.rmd~
Ho_et_al_examples/figure/unnamed-chunk-3.png
Ho_et_al_examples/figure/unnamed-chunk-4.png
Ho_et_al_examples/figure/unnamed-chunk-6.png
Ho_et_al_examples/yuletr9.tre
NAMESPACE
R/allnode.times.R R/annotatedTreeReader.R R/dist.topo.normalised.R R/distunlab.R R/get.ancestor.nodes.branches.R R/get.branches.age.sorted.R R/get.clock.data.R R/get.deepest.br.length.R R/get.descending.nodes.branches.R R/get.df.R R/get.external.branch.length.R R/get.first.node.height.R R/get.internal.branch.length.R R/get.lineage.time.rate.R R/get.ltt.summary.R R/get.oldest.branch.length.R R/get.rate.descendant.pairs.R R/get.rtt.dist.R R/get.tree.data.matrix.R R/intnode.times.R R/make.lsd.dates.R R/mid.edge.ages.R R/node.to.tip.dist.R R/pathnode.R R/plot.ratesim.R R/simulate.autocor.kishino.R R/simulate.autocor.thorne.R R/simulate.clock.R R/simulate.dpp.R R/simulate.rate.R R/simulate.tdep.ho.R R/simulate.uncor.exp.R R/simulate.uncor.gamma.R R/simulate.uncor.lnorm.R R/simulate.white.noise.R R/stemmy.R R/sum.descending.branches.R R/trann2trdat.R README.md
README.md~
Untitled0.ipynb
example_data/hiv_A_env.tree
example_data/tr_example.tree
example_data/tutorial.txt~
experimental/README.md experimental/Rplot.pdf experimental/beast_reader.R
experimental/beast_reader.R~
experimental/fig1.pdf
experimental/fig1_2.svg
experimental/figure/unnamed-chunk-11.png
experimental/figure/unnamed-chunk-12.png
experimental/figure/unnamed-chunk-13.png
experimental/figure/unnamed-chunk-17.png
experimental/figure/unnamed-chunk-18.png
experimental/figure/unnamed-chunk-3.png
experimental/figure/unnamed-chunk-5.png
experimental/figure/unnamed-chunk-6.png
experimental/figure/unnamed-chunk-7.png
experimental/figure/unnamed-chunk-8.png
experimental/get_tips.R
experimental/nelsi_tutorial_dna.fasta
experimental/nelsi_tutorial_pylogram.tree
experimental/papers_figs.R
experimental/papers_figs.R~
experimental/plot.beast.tree.R
experimental/relaxed_uni.trees
experimental/relaxed_uni.txt
experimental/relaxed_uni_Dicty.trees
experimental/relaxed_uni_Dicty.txt
experimental/simulate.uncor.beta.R experimental/summ_trees.R
experimental/summ_trees.R~
experimental/tree_summaries.zip
experimental/tree_summaries/relaxed_uni.txt
experimental/tree_summaries/relaxed_uni_Dicty.txt
experimental/tree_summaries/relaxed_uni_names.txt
experimental/tree_summaries/relaxed_uni_names_Dicty.txt
experimental/tut.html
experimental/tut.md
experimental/tutorial-out.docx
experimental/tutorial-out.txt
experimental/tutorial.docx
experimental/tutorial.html
experimental/tutorial.md
experimental/tutorial.rnw
experimental/tutorial.txt
experimental/xml_p88.txt
experimental/xml_p88.txt~
figure/unnamed-chunk-11.png
figure/unnamed-chunk-12.png
figure/unnamed-chunk-13.png
figure/unnamed-chunk-17.png
figure/unnamed-chunk-18.png
figure/unnamed-chunk-3.png
figure/unnamed-chunk-4.png
figure/unnamed-chunk-5.png
figure/unnamed-chunk-6.png
figure/unnamed-chunk-7.png
figure/unnamed-chunk-8.png
figure/unnamed-chunk-9.png
get_ancestor_nodes.ipynb
man/.DS_Store
man/NELSI_0.2-package.Rd man/allnode.times.Rd man/annotatedTreeReader.Rd man/get.clock.data.Rd man/get.lineage.time.rate.Rd man/get.ltt.summary.R man/get.rate.descendant.pairs.Rd man/get.tree.data.matrix.Rd man/intnode.times.R man/make_lsd_date_file.R man/mid.edge.ages.Rd man/pathnode.Rd man/plot.ratesim.Rd man/simulate.autocor.kishino.Rd man/simulate.autocor.thorne.Rd man/simulate.clock.Rd
man/simulate.clock.Rd~
man/simulate.dpp.Rd
man/simulate.dpp.Rd~
man/simulate.rate.Rd man/simulate.tdep.ho.Rd man/simulate.uncor.exp.Rd man/simulate.uncor.gamma.Rd
man/simulate.uncor.gamma.Rd~
man/simulate.uncor.lnorm.Rd
man/simulate.uncor.lnorm.Rd~
man/simulate.white.noise.Rd man/stemmy.Rd man/trann2trdat.Rd tr.pdf
tutorial/example_data/.DS_Store
sebastianduchene/NELSI documentation built on June 13, 2018, 4:26 p.m.