Files in weidewind/evolikelihood
What the package does (short line)

.RData
.Rbuildignore
.Rhistory
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.gitignore
DESCRIPTION
NAMESPACE
R/EM.R R/GroupTest.R R/LRT.R R/MLE_functions.R R/MLE_parameters.R R/ParseOutput.R R/tests/EM_test.R R/tests/EM_test_long.R R/tests/MLE_functions_test.R R/tests/run_tests.R
Read-and-delete-me
Rplots.pdf
data/h1_for_LRT.csv
data/h3_for_LRT.csv
data/mock_h1_for_LRT.csv
data/mygroups.rda
data/n1_for_LRT.csv
data/n2_for_LRT.csv
demo/actions.R demo/em_results.R demo/emme.R demo/emme_rstudio.R demo/false_adaptation.R demo/groups.R demo/groups_rstudio.R demo/toy_for_perl.R
evolike.Rproj
h3_plot_.png
man/evolike-package.Rd man/find_single_root.Rd
output/h1_emtest_2cl
output/h1_single_root_without_negative_roots_step_1_20_init02
output/p_derivative_with_maximum.png
output/plots/h1_likelihood_plot_151_INTNODE2425.png
output/plots/h1_likelihood_plot_169_INTNODE2394.png
output/plots/h1_likelihood_plot_169_INTNODE2434.png
output/plots/h1_likelihood_plot_171_INTNODE2429.png
output/plots/h1_likelihood_plot_202_INTNODE2406.png
output/plots/h1_likelihood_plot_205_INTNODE2406.png
output/plots/h1_likelihood_plot_238_INTNODE2422.png
output/plots/h1_likelihood_plot_73_INTNODE2425.png
output/plots/h3_likelihood_plot_110_INTNODE4209.png
output/plots/h3_likelihood_plot_151_INTNODE4202.png
output/plots/h3_likelihood_plot_153_INTNODE4102.png
output/plots/h3_likelihood_plot_153_INTNODE4103.png
output/plots/h3_likelihood_plot_153_INTNODE4232.png
output/plots/h3_likelihood_plot_15_INTNODE4236.png
output/plots/h3_likelihood_plot_19_INTNODE4238.png
output/plots/h3_likelihood_plot_66_INTNODE4232.png
output/plots/h3_likelihood_plot_69_INTNODE4232.png
output/plots/n1_likelihood_plot_200_INTNODE2384.png
output/plots/n1_likelihood_plot_382_INTNODE2390.png
output/plots/n2_likelihood_plot_221_INTNODE4476.png
output/plots/n2_likelihood_plot_248_INTNODE4608.png
output/plots/n2_likelihood_plot_329_INTNODE4636.png
output/plots/n2_likelihood_plot_466_INTNODE4636.png
output/plots/readme
output/tree_likelihood/fishy_likelihood/branch_end/h1_single_root_31_03_truelambda_fishy
output/tree_likelihood/fishy_likelihood/branch_end/h1_single_root_without_negative_roots
output/tree_likelihood/fishy_likelihood/branch_end/h3_single_root_31_03_truelambda_fishy
output/tree_likelihood/fishy_likelihood/branch_end/h3_single_root_without_negative_roots
output/tree_likelihood/fishy_likelihood/branch_end/n1_single_root_31_03_truelambda_fishy
output/tree_likelihood/fishy_likelihood/branch_end/n1_single_root_without_negative_roots
output/tree_likelihood/fishy_likelihood/branch_end/n2_single_root_31_03_truelambda_fishy
output/tree_likelihood/fishy_likelihood/branch_end/n2_single_root_without_negative_roots
output/tree_likelihood/fishy_likelihood/branch_middle/h1_all_parms_middle
output/tree_likelihood/fishy_likelihood/branch_middle/h1_all_parms_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/h1_all_parms_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/h1_single_root_middle
output/tree_likelihood/fishy_likelihood/branch_middle/h1_single_root_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/h1_single_root_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/h3_all_parms_middle
output/tree_likelihood/fishy_likelihood/branch_middle/h3_all_parms_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/h3_all_parms_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/h3_single_root_middle
output/tree_likelihood/fishy_likelihood/branch_middle/h3_single_root_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/h3_single_root_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/n1_all_parms_middle
output/tree_likelihood/fishy_likelihood/branch_middle/n1_all_parms_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/n1_all_parms_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/n1_single_root_middle
output/tree_likelihood/fishy_likelihood/branch_middle/n1_single_root_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/n1_single_root_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/n2_all_parms_middle
output/tree_likelihood/fishy_likelihood/branch_middle/n2_all_parms_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/n2_all_parms_middle_search
output/tree_likelihood/fishy_likelihood/branch_middle/n2_single_root_middle
output/tree_likelihood/fishy_likelihood/branch_middle/n2_single_root_middle2
output/tree_likelihood/fishy_likelihood/branch_middle/n2_single_root_middle_search
output/tree_likelihood/true_likelihood/branch_end/h1_single_root_31_03_truelambda
output/tree_likelihood/true_likelihood/branch_end/h3_single_root_31_03_truelambda
output/tree_likelihood/true_likelihood/branch_end/n1_single_root_31_03_truelambda
output/tree_likelihood/true_likelihood/branch_end/n2_single_root_31_03_truelambda
output/trees/h1_sites_151.tre
output/trees/h1_sites_169.tre
output/trees/h1_sites_171.tre
output/trees/h1_sites_202.tre
output/trees/h1_sites_205.tre
output/trees/h1_sites_238.tre
output/trees/h1_sites_73.tre
output/trees/h3_sites_110.tre
output/trees/h3_sites_15.tre
output/trees/h3_sites_151.tre
output/trees/h3_sites_153.tre
output/trees/h3_sites_19.tre
output/trees/h3_sites_66.tre
output/trees/h3_sites_69.tre
output/trees/n1_sites_200.tre
output/trees/n1_sites_382.tre
output/trees/n2_sites_221.tre
output/trees/n2_sites_248.tre
output/trees/n2_sites_329.tre
output/trees/n2_sites_466.tre
output/wood_likelihood/em_trace.png
output/wood_likelihood/h1_all_parms_middle_search
output/wood_likelihood/h1_single_root_middle_search
weidewind/evolikelihood documentation built on May 28, 2017, 2:01 a.m.