Merge pull request #126 from mrc-ide/feature/new_plots

added plot_pairs and updated installation instructions

DESCRIPTION

@@ -1,7 +1,7 @@
 Package: drjacoby
 Type: Package
 Title: Flexible Markov Chain Monte Carlo via Reparameterization
-Version: 1.5.3
+Version: 1.5.4
 Authors@R: c(
     person("Bob", "Verity", email = "[email protected]", role = c("aut", "cre")),
     person("Pete", "Winskill", email = "[email protected]", role = c("aut"))
@@ -26,7 +26,9 @@ Imports:
     rlang,
     cowplot,
     dplyr,
-    magrittr
+    magrittr,
+    GGally,
+    tidyr
 Suggests: 
     testthat,
     covr,

NAMESPACE

@@ -6,16 +6,20 @@ export(check_drjacoby_loaded)
 export(cpp_template)
 export(define_params)
 export(plot_autocorrelation)
-export(plot_cor)
 export(plot_cor_mat)
 export(plot_credible)
+export(plot_density)
 export(plot_mc_acceptance)
-export(plot_par)
+export(plot_pairs)
 export(plot_rung_loglike)
+export(plot_scatter)
+export(plot_trace)
 export(run_mcmc)
 export(sample_chains)
 import(dplyr)
 import(ggplot2)
+importFrom(GGally,ggpairs)
+importFrom(GGally,wrap)
 importFrom(Rcpp,sourceCpp)
 importFrom(coda,geweke.diag)
 importFrom(coda,mcmc)
@@ -27,6 +31,7 @@ importFrom(stats,quantile)
 importFrom(stats,runif)
 importFrom(stats,setNames)
 importFrom(stats,var)
+importFrom(tidyr,pivot_longer)
 importFrom(utils,setTxtProgressBar)
 importFrom(utils,txtProgressBar)
 useDynLib(drjacoby, .registration = TRUE)