-
Notifications
You must be signed in to change notification settings - Fork 0
Expand file tree
/
Copy pathNAMESPACE
More file actions
108 lines (107 loc) · 2.81 KB
/
NAMESPACE
File metadata and controls
108 lines (107 loc) · 2.81 KB
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
# Generated by roxygen2: do not edit by hand
S3method(plot,bace_convergence)
S3method(print,bace_complete)
S3method(print,bace_convergence)
S3method(print,bace_diagnostics)
S3method(print,bace_final)
S3method(print,bace_pooled)
S3method(print,bace_pooled_MCMCglmm)
S3method(print,phylo_signal)
S3method(summary,bace_diagnostics)
S3method(summary,bace_pooled_MCMCglmm)
export("%>%")
export(.build_formula)
export(.build_formula_string)
export(.build_formula_string_random)
export(.check_mcmc_diagnostics)
export(.count_categorical_fixef)
export(.data_prep)
export(.extract_gaussian_attrs)
export(.get_type)
export(.get_variables)
export(.make_prior)
export(.model_fit)
export(.pred_cat)
export(.pred_cat_forward)
export(.pred_cont)
export(.pred_count)
export(.pred_threshold)
export(.pred_threshold_forward)
export(.predict_bace)
export(.summarise_var_types)
export(assess_convergence)
export(bace)
export(bace_final_imp)
export(bace_imp)
export(bace_option_defaults)
export(bace_options)
export(generate_default_beta_matrix)
export(get_imputed_data)
export(get_pooled_model)
export(mnom_liab2cat)
export(ordinal_liab2cat)
export(phylo_signal_summary)
export(plot_acf_convergence)
export(plot_bace_imputation_comparison)
export(plot_convergence_summary)
export(plot_density_convergence)
export(plot_energy_convergence)
export(plot_pct_change_convergence)
export(plot_trace_convergence)
export(plot_wasserstein_convergence)
export(pool_posteriors)
export(print_sim_bace_summary)
export(sim_bace)
export(sim_bace_binary)
export(sim_bace_gaussian)
export(sim_bace_poisson)
export(sim_tree)
importFrom(MASS,ginv)
importFrom(MASS,mvrnorm)
importFrom(ape,Ntip)
importFrom(ape,rphylo)
importFrom(ape,vcv)
importFrom(coda,HPDinterval)
importFrom(coda,as.mcmc)
importFrom(coda,effectiveSize)
importFrom(coda,geweke.diag)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,rainbow)
importFrom(graphics,abline)
importFrom(graphics,barplot)
importFrom(graphics,boxplot)
importFrom(graphics,grid)
importFrom(graphics,layout)
importFrom(graphics,legend)
importFrom(graphics,lines)
importFrom(graphics,mtext)
importFrom(graphics,par)
importFrom(graphics,plot.new)
importFrom(graphics,points)
importFrom(graphics,text)
importFrom(magrittr,"%>%")
importFrom(methods,as)
importFrom(stats,acf)
importFrom(stats,approx)
importFrom(stats,as.formula)
importFrom(stats,complete.cases)
importFrom(stats,cor)
importFrom(stats,cor.test)
importFrom(stats,median)
importFrom(stats,model.matrix)
importFrom(stats,na.omit)
importFrom(stats,na.pass)
importFrom(stats,plogis)
importFrom(stats,pnorm)
importFrom(stats,predict)
importFrom(stats,rbinom)
importFrom(stats,rnorm)
importFrom(stats,rpois)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stats,update)
importFrom(stats,var)
importFrom(stringi,stri_rand_strings)
importFrom(utils,combn)
importFrom(utils,head)