Update README.md

README.md

@@ -27,26 +27,22 @@ Web page: [liverpool.ac.uk/environmental-sciences/staff/peter-burgess](https://w
 
 Apache 2.0 License, see LICENSE file for license text.
 
-## Requirements
-
-R version 3.0.2 or later  
-R packages "renv", "shiny" and "png"
-
-## Resources
-
-The app uses datasets generated by [CarboCAT](https://github.com/csdms-contrib/carbocat), a forward model of carbonate sedimentation developed by [Peter Burgess](https://www.liverpool.ac.uk/environmental-sciences/staff/peter-burgess/). If you use or cite the app, please cite CarboCAT:
+## Online Usage
 
-- Burgess, P.M., 2013, CarboCAT: A cellular automata model of heterogeneous carbonate strata: Computers & Geosciences, v. 53, p. 129–140, doi: [10.1016/j.cageo.2011.08.026](https://www.sciencedirect.com/science/article/pii/S0098300411002949).
+The app is available online at [stratigraphicpaleobiology.shinyapps.io/DarwinCAT](https://stratigraphicpaleobiology.shinyapps.io/DarwinCAT/)  
+Online access works with a web browser and does not require any coding skills or installations.
 
 ## Offline Usage
 
-1. Install the _renv_ package by running the following code in R:
+Running the app offline requires R version 3.0.2 or later, RStudio, and the R packages "renv", "shiny" and "png"
+
+1. Install the _renv_ package by running the following code in RStudio:
 
     ``` R
     if (!require("renv", quietly = TRUE)) install.packages("renv")
     ```
 
-2. Open the R project: In RStudio, go to _File -> Open Project_, then navigate to the DarwinCAT folder and open the DarwinCAT Rproject file (file ending _.Rproj_)
+2. Open the R project: Go to _File -> Open Project_, then navigate to the DarwinCAT folder and open the DarwinCAT Rproject file (file ending _.Rproj_)
 3. Run
 
     ``` R
@@ -60,37 +56,49 @@ The app uses datasets generated by [CarboCAT](https://github.com/csdms-contrib/c
     shiny::runApp()
     ```
 
-## Online Usage
-
-The app is available on [stratigraphicpaleobiology.shinyapps.io/DarwinCAT](https://stratigraphicpaleobiology.shinyapps.io/DarwinCAT/)
-
-## Citation
-
-To cite the app, please use
+## Further Work
 
-Hohmann, Niklas, Jarochowska, Emilia, & Burgess, Peter. (2023). DarwinCAT (1.0.0). Zenodo. [DOI: 10.5281/zenodo.7851989](https://doi.org/10.5281/zenodo.7851989) 
+Next steps in development of the App are (in no specific order):
 
+1. Add option to download data (time series & stratigraphic time series)
+2. Add option to upload user time series
+3. Branch off _ProxyCAT_, an app that focuses on preservation of proxy records
+4. Publish lesson plans for different skill/knowledge levels
 
 ## Repository structure
 
 - _LICENSE.md_ : Apache 2.0 license text
 - _README.md_ : Readme file
+- _app.R_ : Main app
+- _renv.lock_ : lock file from R package renv
+- _CITATION.cff_ : Citation format file
+- _.zenodo.json_ : Metadata for zenodo
+- _DarwinCAT.Rproj_ : Rproject file
+- _.Rprofile_ : Rprofile file generated by renv
+- _.gitignore_ : Untracked files
 - _data_ : Folder for data
   - _age_depth_models_for_shiny_app.Rdata_ : R workspace containing the age depth models generated by CarboCAT in Matlab
+- _renv_ : Folder used by the R package renv
 - _src_ : Folder for functions called by the app
+  - _getAgeDepthModel.R_ : returns age depth models based on user input
+   - _getEvolutionarySimulations.R_ : makes evolutionary simulation based on user inputs
   - _global_variables.R_ : loads data & global variables into workspace
   - _makeBasinTransectPlot.R_ : plot basin transect generated by CarboCAT
   - _makeWheelerDiagram.R_ : plot Wheeler diagram generated by CarboCAT
   - _makeTimeDomainPlot.R_ : plot trait simulations in time
-  - _getAgeDepthModel.R_ : returns age depth models based on user input
-  - _getEvolutionarySimulations.R_ : makes evolutionary simulation based on user inputs
   - _makeAgeDepthModelPlot.R_ : plots age depth models
   - _makeStratDomainPlot.R_ : plot evolutionary simulations in stratigraphic domain
-- _www_ : Folder with pictures used in the app  
-  - _people_ : Folder with pictures of authors
-  - _logos_ : Folder with logos
-  - _geology_ : Folder with basin transect and wheeler diagram produced by CarboCAT  
-- _app.R_ : Main app
+- _www_ : Folder with pictures used in the app
+
+## Citation
+
+To cite the app, please use
+
+- Hohmann, Niklas, Jarochowska, Emilia, & Burgess, Peter. (2023). DarwinCAT (1.0.0). Zenodo. [DOI: 10.5281/zenodo.7851989](https://doi.org/10.5281/zenodo.7851989)
+
+The app uses datasets generated by [CarboCAT](https://github.com/csdms-contrib/carbocat), a forward model of carbonate sedimentation developed by [Peter Burgess](https://www.liverpool.ac.uk/environmental-sciences/staff/peter-burgess/). If you use or cite the app, please cite CarboCAT:
+
+- Burgess, P.M., 2013, CarboCAT: A cellular automata model of heterogeneous carbonate strata: Computers & Geosciences, v. 53, p. 129–140, doi: [10.1016/j.cageo.2011.08.026](https://www.sciencedirect.com/science/article/pii/S0098300411002949).
 
 ## Funding