README.md

In FranzKrah/rMyCoPortal: rMyCoPortal - An R package to interface with the Mycology Collections Portal

The MyCoPortal

The Mycology Collections data Portal (MyCoPortal) is a database of fungal diversity with records mainly from North America. For more - and detailed - information, please visit http://mycoportal.org/portal/index.php.

The rMyCoPortal R package is an interface to the content stored on the MyCoPoral website. It allows to download records from the database readily in R for further analysis. It further provides some basic plotting functions. Below I will show the basic usability and some further possibilities of using the data.

Requirements

Under the new MacOS Mojave there have been problems with the sf and raster package. The introduction vignette works fine under Sierra, Mojave and Windows10. However, the vignette application example might create errors under Mojave.

R version 3.5.1 (2018-07-02) Platform: x86_64-apple-darwin15.6.0 (64-bit) Running under: macOS High Sierra 10.13.6

Install rMyCoPortal

```{r setup, include=TRUE, eval=FALSE}

install.packages("devtools") devtools::install_github("FranzKrah/rMyCoPortal")

```

Docker

Before you start using rMyCoPortal, you need to install docker (https://docs.docker.com/install/). Docker performs virtualization, also known as "containerization". rMyCoPortal internally uses the R package RSelenium to create a Selenium Server from which the MyCoPortal website is addressed. Docker needs to run before using the rMyCoPortal.

How to use rMyCoPortal

Vignette 1: Introduction

Vignette 2: Example for Species Distribution modeling

Meta

Please note that this project is released with a Contributor Code of Conduct. By participating in this project you agree to abide by its terms.

Please report any issues or bugs.

FranzKrah/rMyCoPortal documentation built on May 14, 2019, 11:11 a.m.