Want to learn the best practices for the analysis of SARS-CoV-2 data using Galaxy? Visit the Galaxy SARS-CoV-2 portal at covid19.galaxyproject.org. We mirror all public SARS-CoV-2 data from ENA in a Galaxy data library for your convenience. The Galaxy community also created COVID-19 related trainings and we also maintain a running document with recent news.
Welcome to Galaxy Proteomics
This European Galaxy branches off from the main
usegalaxy.eu server and focuses on one specific
Galaxy Proteomics is a multiple-‘omics’ data-analysis
platform with particular emphasis on mass
spectrometry-based proteomics. It is hosted by
GalaxyEU and maintained by the GalaxyP team from
the University of Minnesota, USA.
|Tweets by usegalaxyp *|
Are you new to Galaxy, or returning after a long time, and looking for help to get started? Take a guided tour through Galaxy’s user interface.
Want to learn more about proteomics? Check out the following lesson tutorials from the Galaxy Training Network:
Other specialized Galaxy servers curated by the Galaxy-P team containing tools, workflows, and hands-on/video tutorials.
|Proteogenomics Gateway||Proteogenomics 1: Database creation
Proteogenomics 2: Database search
Proteogenomics 3: Novel peptide analysis
|Metaproteomics Gateway||Metaproteomics tutorial|
Featured Galaxy-P tools supported with manuscripts, visualization plugins, docker containers, and hands-on tutorials.
|CRAVAT-P||Stands for Cancer Related Analysis of Variants Toolkit for Proteogenomics. Submits, checks for, and retrieves data for cancer annotation||Sajulga et. al 2018|
|QuanTP||Correlation between protein and transcript||Kumar et. al 2019|
|MetaQuantome||Quantitative analysis of the function and taxonomy of microbiomes and their interaction|
News and Events
Data Driven Research for Everyone
Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biological research.
- Accessible: Users can easily run tools without writing code or using the CLI; all via a user-friendly web interface.
- Reproducible: Galaxy captures all the metadata from an analysis, making it completely reproducible.
- Transparent: Users share and publish analyses via interactive pages that can enhance analyses with user annotations.
- Scalable: Galaxy can run on anything, from a laptop, to large clusters, to the cloud
Training Infrastructure as a Service
We want to help you conduct your training seminars. You provide the training, we provide you training infrastructure at no cost.
Why use UseGalaxy.eu training infrastructure?
- Private queue, no wait times
- No Galaxy Maintenance
- No Galaxy Administration
- Official Galaxy Training Materials guaranteed to work
Simply fill out the infrastructure request form and we'll get back to you shortly.
UseGalaxy.eu: The European Galaxy instance
- Thousands of documented and maintained tools
- Free registration
- 250 GB per user (500 GB for ELIXIR members)
- On demand training capacity
And even more!
The UseGalaxy.eu team supports many projects in the Galaxy community:
- Galaxy HiCExplorer to process, analyse and visualize Hi-C data
We regularly provide workshops
But we cannot always meet capacity, so we've put all of our training materials online. This has become a community project with people from all over the world contributing training materials.
Topics include: variant analysis, transcriptomics, metagenomics, epigenetics, and many more!
We are aiming to maintain high competency and provide high quality data analysis services to all our Galaxy users.
Therefore we request that you acknowledge this service by including the members of the Freiburg Galaxy Team as co-authors if they have made a significant intellectual and/or organizational contribution to the work described (conceptualization, design, data analysis, data interpretation and/or input into drafting, revising or writing any portion of the manuscript).
Individuals who have contributed to the project, but whose contributions do not rise to the level justifying authorship, can be recognized in an acknowledgements section of the manuscript as follows:
The authors acknowledge the support of the Freiburg Galaxy Team: Person X and Prof. Rolf Backofen, Bioinformatics, University of Freiburg, Germany funded by Collaborative Research Centre 992 Medical Epigenetics (DFG grant SFB 992/1 2012) and German Federal Ministry of Education and Research (BMBF grant 031 A538A de.NBI-RBC).
Additional funding of projects and/or provision of material expenses are welcome as well, to help support our growing Galaxy community in Freiburg.
We want you to feel that useGalaxy.eu is a reliable service, so we are promising to give you advanced warning (when possible) about upcoming downtimes or any events that might degrade the availability of useGalaxy.eu.
- This is a best effort, as much warning as we possibly can
- But we cannot make any regarding downtime notices
- The numbers we provide here are rough estimates
|<5 minutes||possibly without notice|
|1 hour||1 day|
|1 day||1 week|
|1 week||1 month|
Our Data Retention Policy
Registered UsersUser data on UseGalaxy.eu (i.e. datasets, histories) will be available as long as they are not deleted by the user. Once marked as deleted the datasets will be permanently removed within 14 days. If the user "purges" the dataset in the Galaxy, it will be removed immediately, permanently. An extended quota can be requested for a limited time period in special cases.
Unregistered UsersProcessed data will only be accessible during one browser session, using a cookie to identify your data. This cookie is not used for any other purposes (e.g. tracking or analytics.) If UseGalaxy.eu service is not accessed for 90 days, those datasets will be permanently deleted.
FTP DataAny user data uploaded to our FTP server should be imported into Galaxy as soon as possible. Data left in FTP folders for more than 3 months, will be deleted.
GDPR ComplianceThe Galaxy service complies with the EU General Data Protection Regulation (GDPR). You can read more about this on our Terms and Conditions.
The maintenance and administration of UseGalaxy.eu is done primarily by the
Freiburg Galaxy Team, an academic group. We work together with other academic
groups across Europe and with the US Galaxy team.
We make a best effort to provide high uptime. Please see our [status page](https://status.galaxyproject.org) for more information.
The Freiburg Team tries to maintain a balance between service uptime and the health of the administrators behind the service.
Sometimes we are able to achieve this, sometimes due to factors outside our control, our service is temporarily inaccessible.
Jul 18, 2020 - Jul 19, 2020
Introduction to Machine Learning at BCC2020
Jun 22, 2020 - Jun 26, 2020
Galaxy-ELIXIR Webinar/Workshop: Machine Learning using Galaxy
May 28, 2020
Galaxy-ELIXIR Webinar 5: Behind the scenes - Global Open Infrastructures at work
May 20, 2020
Galaxy-ELIXIR Webinar 4: Evolution of the Virus
May 19, 2020
Online Galaxy Introduction Workshop
May 14, 2020