spatial_ecology_geocomp.qmd

---
title: "Spatial Ecology - Geocomputation with GRASS"
author: "Giuseppe Amatulli"
date: 06/19/2025
format:
  html:
    toc: true
    code-tools: true
    code-copy: true
    code-fold: false
categories: [advanced, Bash, HPC, hydrology, external, course]
description: GRASS tutorials for geocomputation, hydrology, species distribution modeling, and HPC.
execute:
  eval: false
---

![](images/spatial_ecology.png){.preview-image}

The following tutorials were developed as part of the
[Spatial Ecology courses](https://spatial-ecology.net/training/),
where students are introduced to an array of powerful open-source geocomputation tools and machine learning methodologies under the Linux environment.

## GRASS Introduction

Learn the basics of GRASS including the data structure, command syntax, working environment, mapsets, and region settings using the command line.

<https://spatial-ecology.net/docs/build/html/GRASS/grass_intro.html>

## Start a New GRASS Project

Create a new GRASS project from scratch, import data, and configure the working environment.

<https://spatial-ecology.net/docs/build/html/GRASS/grass_newproject.html>

## Stream-Network Extraction and Basin Delineation

Use GRASS for hydrographic feature extraction at large scales, including tiled flow accumulation, stream network extraction, and basin delineation. Also available as a [Google Colab version](https://spatial-ecology.net/docs/build/html/GRASS/grass_hydro_colab.html).

<https://spatial-ecology.net/docs/build/html/GRASS/grass_hydro.html>

## Species Distribution Modeling with GRASS

Geocomputation for a Random Forest species distribution model using GRASS to prepare environmental predictors and generate predictions.

<https://spatial-ecology.net/docs/build/html/GRASS/SDM1_MWood_gecomp4GRASS.html>

<https://spatial-ecology.net/docs/build/html/GRASS/SDM1_MWood_GRASSmodel.html>

## Use of GRASS in HPC

Set up and run GRASS in a High Performance Computing cluster environment using Bash scripting and the Slurm queuing system.

<https://spatial-ecology.net/docs/build/html/HPC/hpc_setting_grass.html>

Video recording (29 min): <https://youtu.be/4i1Fs29D0-A>

---

Author: Giuseppe Amatulli, Yale University / Spatial Ecology

These materials were developed as part of the US NSF-funded POSE project (Award 2303651).