Files in collinmmccabe/enss
Effective Network Size Simulation
.Rbuildignore
.Rprofile
.github/workflows/codesee-arch-diagram.yml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/AICc_ens_metrics.R
R/breakpoint_max.R
R/calculate_metrics.R
R/clust_sim_SI.R
R/clust_sim_SIR.R
R/clust_sim_SIR_unif.R
R/clust_sim_SIR_w.R
R/clust_sim_SI_unif.R
R/clust_sim_SI_w.R
R/compare_SIR_erg_ens.R
R/compare_SI_erg_ens.R
R/estimate_backtrans_ens.R
R/estimate_ens.R
R/gen_erg.R
R/gen_max.R
R/import_emp.R
R/plot_compare_SI.R
R/plot_compare_SIR.R
R/plot_predict.R
R/predict_SIR_max.R
R/predict_SI_max.R
R/sim_SI.R
R/sim_SIR.R
R/sim_SIR_unif.R
R/sim_SIR_w.R
R/sim_SI_unif.R
R/sim_SI_w.R
README.md
_config.yml
code/PGLS.R
code/breakpoints.R
code/figures_presentation.R
code/old_simulations.R
code/proj-calculate_metrics.R
code/proj-emp_import.R
code/proj-emp_simulate.R
code/proj-erg_generate.R
code/proj-erg_simulate.R
code/proj-max_generate.R
code/proj-max_simulate.R
code/proj-max_simulate_variable_beta_SI.R
code/proj-plot_compare_SI.R
code/proj-plot_compare_SIR.R
code/proj-plot_predict.R
data/Effective_SIR_emp
data/Effective_SIR_max_unif
data/Effective_SIR_maxsim
data/Effective_SI_emp
data/Effective_SI_max_unif
data/Effective_SI_maxsim
data/Effective_el_emp
data/Effective_el_emp_w
data/Effective_g_emp
data/Effective_spp_emp
data/empirical_edgelists/e_aloca.csv
data/empirical_edgelists/e_alouattaguariba.csv
data/empirical_edgelists/e_atege.csv
data/empirical_edgelists/e_bonobos2.csv
data/empirical_edgelists/e_braar.csv
data/empirical_edgelists/e_calja.csv
data/empirical_edgelists/e_cappedlang2.csv
data/empirical_edgelists/e_cebap.csv
data/empirical_edgelists/e_cebca.csv
data/empirical_edgelists/e_cerae.csv
data/empirical_edgelists/e_cerca.csv
data/empirical_edgelists/e_cermi.csv
data/empirical_edgelists/e_chimps2.csv
data/empirical_edgelists/e_colgu.csv
data/empirical_edgelists/e_erypa.csv
data/empirical_edgelists/e_eulemur2.csv
data/empirical_edgelists/e_fuscata2.csv
data/empirical_edgelists/e_fuscata3.csv
data/empirical_edgelists/e_hanumanlang2.csv
data/empirical_edgelists/e_lemca.csv
data/empirical_edgelists/e_macar.csv
data/empirical_edgelists/e_macas.csv
data/empirical_edgelists/e_macfa.csv
data/empirical_edgelists/e_macfu.csv
data/empirical_edgelists/e_macmu.csv
data/empirical_edgelists/e_macra.csv
data/empirical_edgelists/e_macto.csv
data/empirical_edgelists/e_mansp.csv
data/empirical_edgelists/e_miota.csv
data/empirical_edgelists/e_mulatta2.csv
data/empirical_edgelists/e_panpa.csv
data/empirical_edgelists/e_pantr.csv
data/empirical_edgelists/e_papha.csv
data/empirical_edgelists/e_papioursinus.csv
data/empirical_edgelists/e_pappa.csv
data/empirical_edgelists/e_papur.csv
data/empirical_edgelists/e_proboscis2.csv
data/empirical_edgelists/e_sagfu.csv
data/empirical_edgelists/e_saguinusmystax.csv
data/empirical_edgelists/e_saisc.csv
data/empirical_edgelists/e_thege.csv
data/empirical_edgelists/e_trachypithecusjohnii.csv
data_files/EGS_emp.csv
data_files/EGS_emp_w.csv
data_files/consensusTree_10kTrees_Primates_Version3.nex
data_files/pglsdata5.csv
data_files/zresids.csv
enss.Rproj
inst.R
man/AICc_ens_metrics.Rd
man/breakpoint_max.Rd
man/calculate_metrics.Rd
man/clust_sim_SI.Rd
man/clust_sim_SIR.Rd
man/clust_sim_SIR_unif.Rd
man/clust_sim_SIR_w.Rd
man/clust_sim_SI_unif.Rd
man/clust_sim_SI_w.Rd
man/compare_SIR_erg_ens.Rd
man/compare_SI_erg_ens.Rd
man/estimate_backtrans_ens.Rd
man/estimate_ens.Rd
man/gen_erg.Rd
man/gen_max.Rd
man/import_emp.Rd
man/plot_compare_SI.Rd
man/plot_compare_SIR.Rd
man/plot_predict.Rd
man/predict_SIR_max.Rd
man/predict_SI_max.Rd
man/sim_SI.Rd
man/sim_SIR.Rd
man/sim_SIR_unif.Rd
man/sim_SIR_w.Rd
man/sim_SI_unif.Rd
man/sim_SI_w.Rd
sims_ERG/Effective_SIR_erg
sims_ERG/Effective_SI_erg
sims_ERG/Effective_el_erg
sims_ERG/Effective_g_erg
sims_empirical/Effective_SIR_emp
sims_empirical/Effective_SIR_emp_w
sims_empirical/Effective_SI_emp
sims_empirical/Effective_SI_emp_w
sims_empirical/Effective_el_emp
sims_empirical/Effective_el_emp_w
sims_empirical/Effective_g_emp
sims_empirical/Effective_spp_emp
sims_maximal/Effective_SIR_max_unif
sims_maximal/Effective_SI_max_unif
sims_maximal/Effective_SI_maxsim
sims_maximal/max/Effective_SIR_max
sims_maximal/max/Effective_SIS_max
sims_maximal/max/Effective_SI_max
sims_maximal/max/Effective_STD_max
sims_maximal/max/Effective_el_max
sims_maximal/max/Effective_g_max
sims_maximal/max2/Effective_SIR_max2
sims_maximal/max2/Effective_SIS_max2
sims_maximal/max2/Effective_SI_max2
sims_maximal/max2/Effective_STD_max2
sims_maximal/max2/Effective_el_max2
sims_maximal/max2/Effective_g_max2
sims_maximal/variable_beta/Effective_SI_max025
sims_maximal/variable_beta/Effective_SI_max050
sims_maximal/variable_beta/Effective_SI_max075
sims_maximal/variable_beta/Effective_SI_max125
sims_maximal/variable_beta/Effective_SI_max150
sims_maximal/variable_beta/Effective_SI_max175
sims_maximal/variable_beta/Effective_SI_max200
vignettes/Effective_SIS_max
vignettes/algorithms.Rmd
vignettes/algorithms.html
vignettes/analyses.Rmd
vignettes/simulations.Rmd
