COVID-19 Research!

Want to learn the best practices for the analysis of SARS-CoV-2 data using Galaxy? Visit the Galaxy SARS-CoV-2 portal. We mirror all public SARS-CoV-2 data from ENA in a Galaxy data library for your convenience. The Galaxy community has created COVID-19 dedicated training materials. Please check our recent activities for more details.

If you need help submitting your data to public archives, like ENA, please get in touch. We will support you in sharing your data.

Welcome to Galaxy Proteomics

GalaxyP logo

This European Galaxy branches off from the main server and focuses on one specific
domain: Proteomics.

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.

GalaxyP Resources:
About Us
Conference presentations


  1. Tutorials
  2. Gateways
  3. Research Projects
  4. News and Events
  5. Contributors


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:

Lesson Hands-on Input dataset Workflows Galaxy tour
Detection and quantitation of N-termini degradomics via N-TAILS  
Label-free versus Labelled - How to Choose Your Quantitation Method    
Mass spectrometry imaging 1: Loading and exploring MSI data  
Metaproteomics tutorial  
Peptide and Protein ID using OpenMS tools
Peptide and Protein ID using SearchGUI and PeptideShaker
Peptide and Protein Quantification via Stable Isotope Labelling (SIL)
Protein FASTA Database Handling  
Proteogenomics 1: Database Creation  
Proteogenomics 2: Database Search  
Proteogenomics 3: Novel peptide analysis  
Secretome Prediction


Other specialized Galaxy servers curated by the Galaxy-P team containing tools, workflows, and hands-on/video tutorials.

Server Tutorial(s) Video
Proteogenomics Gateway Proteogenomics 1: Database creation
Proteogenomics 2: Database search
Proteogenomics 3: Novel peptide analysis
proteogenomics thumbnail
Metaproteomics Gateway Metaproteomics tutorial metaproteomics thumbnail

Research Projects

Featured Galaxy-P tools supported with manuscripts, visualization plugins, docker containers, and hands-on tutorials.

Tool Description Paper Tutorial Docker
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 docker-icon
QuanTP Correlation between protein and transcript Kumar et. al 2019 docker-icon
MetaQuantome Quantitative analysis of the function and taxonomy of microbiomes and their interaction    

News and Events


Our Data Policy

Registered UsersUnregistered UsersFTP DataGDPR Compliance
User data on (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. Processed 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 service is not accessed for 90 days, those datasets will be permanently deleted. Any 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. The Galaxy service complies with the EU General Data Protection Regulation (GDPR). You can read more about this on our Terms and Conditions.