mobiodiv / mobsim_app

Shiny app for the R package mobsim

mobsim_app -- Simulation and visualization of biodiversity patterns across spatial scales using the mobsim R-package

Authors

Katharina Gerstner, Felix May

Description

This is an interactive tool that aims to simulate and visualize multiple biodiversity patterns across spatial scales using the mobsim R-package. A Thomas model is used to simulate point pattern distributions of individual species. Key parameters of the simulation are:

• total number of individuals,
• total number of species,
• the coefficient of variation in the species-abundance distribution that determines the eveness of the abundances,
• spatial aggregation of species.

The tool

1. simulates locations of individuals of different species in a location (plot, area);
2. plots biodiversity patterns such as

• species-abundance distributions (SAD) using Preston octave plot and rank-abundance curve,
• spatial distribution of individuals within a unit area,
• species accummulation curves (SAC), species-area relationships (SAR), and the distance-decay curve.

Run the app on the web

The app is hosted at the following url: https://github.com/MoBiodiv/mobsim_app

Run the app locally

The app can be run locally. Several R packages are required for locally hosting the app, these can be installed from the R terminal:

install.packages(c('shiny', 'shinyBS', 'devtools'))
library(devtools)
install_github('mobiodiv/mobsim')

Once those dependencies are installed you can run the app from the R terminal using:

library(shiny)  
runGitHub("mobiodiv/mobsim_app")

License

GNU GPL

mobsim_app's Issues

App url?

We need to add the app url (where it is being served) to the readme also this should be linked in to the mobsim repo as well

migrate to the mobiodiv organisation and hosting

Hey @KatharinaGerstner and @FelixMay how would you guys feel about migrating this repo over to the Mobiodiv organization: https://github.com/mobiodiv

Nothing will really change for how you guys use the repo just where it resides. My thought here is to keep the related repos together for users to discover. I'm going to attempt to host the Rshiny server on my server I'll update this issue with a url if I get it working.