Update readme file to include application to SOCPR

README.md

@@ -12,15 +12,19 @@ This repository code contain template code associated with the manuscript "Spati
 
 The following directories are currently available in this repository:
 
--   `application_butterflies`, which contains template scripts to for reproducing the case study results for the Great Britain butterfly data in the manuscript. Also contained are:
-    -   Two `cpp` scripts implementing independent factor analysis and spatial factor analysis/restricted spatial factor analysis (SFA/RSFA); these scripts are subsequently passed into [TMB](https://cran.r-project.org/web/packages/TMB/index.html) for model fitting;
-    -   A subfolder `plots` that contains some of the plots available in the manuscript.
 -   `simulation`, which contains the following folders/documents for reproducing the simulation results in the manuscript:
     -   A `simdatfnv0.R` script that contains a function for simulating spatial multivariate abundance data from a joint species distribution model assuming some observed and some unobserved covariates;
     -   `binary_N400`, which contains two `R` scripts and two corresponding `cpp` scripts for reproducing the simulations involving binary responses, $N = 400$ spatial locations from the Great Britain butterfly data, and either coarse or fine-scaled observed covariates. The models compared include independent factor analysis, and spatial factor analysis/restricted spatial factor analysis (SFA/RSFA);
     -   `negin_N400`, which is set up analogously to the `binary_N400` folder except involving negative binomial count responses instead;
     -   `tweedie_N400`, which is set up analogously to the `binary_N400` folder except involving non-negative continuous responses from the Tweedie distribution instead;
     -   `simulationexample_coarsescaleX.pdf` and `simulationexample_finescaleX.pdf` which are the plots available in the manuscript demonstrating coarse or fine-scaled observed covariates, along with fine or coarse-scaled spatial errors forming the residual component of the unobserved covariates.
+-   `application_butterflies`, which contains template scripts to for reproducing the case study results for the Great Britain butterfly data in the manuscript. Also contained are:
+    -   Two `cpp` scripts implementing independent factor analysis and spatial factor analysis/restricted spatial factor analysis (SFA/RSFA); these scripts are subsequently passed into [TMB](https://cran.r-project.org/web/packages/TMB/index.html) for model fitting;
+    -   A subfolder `plots` that contains some of the plots available in the manuscript.
+-   `application_SOCPR`, which contains template scripts to for reproducing the case study results for the Southern Ocean Continuous Plankton Recorder survey data in the manuscript. Also contained are:
+    -   Two `cpp` scripts implementing independent factor analysis and spatial factor analysis/restricted spatial factor analysis (SFA/RSFA); these scripts are subsequently passed into [TMB](https://cran.r-project.org/web/packages/TMB/index.html) for model fitting;
+    -   A subfolder `plots` that contains some of the plots available in the manuscript.
+
 
 The simulation results for $N = 1000$ can be produced by straightforwardly modifying the `R` scripts in the `simulation` folder.