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CyVerse NEON Airborne Observation Platform Workshop

Location: ENR2 Room N595

Times: 09:00 - 17:00 MST, UTC-7

Date: Friday November 19th 2021

Ready to join the workshop? Follow these steps:

Step 1: Create CyVerse Account (free) CyVerse User Portal

Please use your institutional email address, and if you don’t have an ORCID ID - sign up for one of those too, they’re super important and valuable!

Step 2: Sign up for Workshop Workshop Enrollment

Step 3: Review this website – training materials will be posted or linked from here

Goal

The goals of the workshop are to allow you as new data scientists to leave with an understanding of the NEON Data API and working with NEON AOP data and to introduce CyVerse as a platform for conducting data intensive scientific research.

You will have opportunities to work in your preferred Integrated Development Environment (IDE) in the public research cyberinfrastructure. CyVerse enables you to work with large and very large analyses. You will be able to work with NEON AOP data across many sites and many years worth of data without ever having to “download” anything over your local internet service provider.


Tutorial Maintainer(s)

Who to contact if this guide needs fixing.

Maintainer

Institution

GitHub Username

Tyson Swetnam

CyVerse / University of Arizona

tyson-swetnam

Bridget Hass

NEON / Battelle Inc

bridgethass


Prerequisites

Downloads, access, and services

In order to complete this tutorial you will need access to the following services/software

Prerequisite

Preparation/Notes

Link/Download

CyVerse_globe

You will need a CyVerse account to use our tools

CyVerse User Portal

cyberduck

CyberDuck File manager (Windows and Mac OS X only)

Download Cyberduck

github

GitHub allows you to create your own version controlled repositories

GitHub

gee

Google Earth Engine (GEE) code editor account

GEE

Platform(s)

We provide ready-to-use examples of (1) Docker containers with pre-configured geospatial software environments, (2) Notebook examples of NEON AOP geospatial data analyses, & (3) ReadTheDocs style documentation that will allow for self-paced asynchonous learning as well as opportunities for in-person live coding.

We will use the following CyVerse platform(s):

Platform

Interface

Link

Platform Tour

Data Store

GUI/Command line

Data Store

Data Store Guide

Discovery Environment

Web/Point-and-click

Discovery Environment

Discovery Environment Guide

Learning Center

ReadTheDocs

This website

CyVerse Learning Center

Application(s) used

Discovery Environment App(s):

App name

Version

Description

Quick Launch

GitHub repositories

RStudio

latest

Rocker Project RStudio with geospatial applications pre-installed

rstudio-geospatial-latest

CyVerse RStudio GitHub

JupyterLab

2.2.9

Jupyter Lab Data Science Notebook with geospatial applications pre-installed

jupyterlab-geospatial

CyVerse JupyterLab GitHub

GIS Desktop

latest

Ubuntu Desktop with QGIS, GRASS-GIS, SAGA-GIS, PDAL, & GDAL tools

QGIS-Xpra

QGIS Xpra GitHub

Input and example data

In order to complete this tutorial you will need to have the following inputs prepared

Input File(s)

Format

Preparation/Notes

Example Data

NEON API

various

Use in browser or R Studio Shiny App

NEON Shiny Browser

Sample Datasets

various

Example datasets cached on the CyVerse Data Store

WebDav


Fix or improve this documentation


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