Ecology

Learn to analyse Ecological data through Galaxy.

Requirements

Before diving into this topic, we recommend you to have a look at:

Material

Lesson Slides Hands-on Input dataset Workflows Galaxy tour Galaxy instances
Compute and analyze biodiversity metrics with PAMPA toolsuite
tutorial zenodo_link workflow
RAD-Seq de-novo data analysis
tutorial zenodo_link workflow interactive_tour
RAD-Seq Reference-based data analysis
tutorial zenodo_link workflow interactive_tour
RAD-Seq to construct genetic maps
tutorial zenodo_link workflow interactive_tour
Regional GAM
tutorial zenodo_link workflow
Species distribution modeling
tutorial workflow

Galaxy instances

You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.

You can also use the following Docker image for these tutorials:

docker run -p 8080:80 quay.io/galaxy/ecology-training

NOTE: Use the -d flag at the end of the command if you want to automatically download all the data-libraries into the container.

It will launch a flavored Galaxy instance available on http://localhost:8080. This instance will contain all the tools and workflows to follow the tutorials in this topic. Login as admin with password password to access everything.

Maintainers

This material is maintained by:

Yvan Le BrasYvan Le Bras

For any question related to this topic and the content, you can contact them or visit our Gitter channel.

Contributors

This material was contributed to by:

Coline RoyauxColine Royaux Yvan Le BrasYvan Le Bras Clara UrferClara Urfer Elisa MichonElisa Michon Bérénice BatutBérénice Batut Simon BenateauSimon Benateau

References