Merge pull request galaxyproject#5899 from teresa-m/hts_workshop

added hts Freiburg workshop event in Summer

Author: bgruening

CONTRIBUTORS.yaml

@@ -1824,6 +1824,16 @@ millen2223:
     matrix: 'millen2223:matrix.org'
     joined: 2021-10
 
+Minamehr:
+    name: Mina Hojat Ansari
+    email: [email protected]
+    joined: 2025-03
+    elixir_node: de
+    affiliations:
+      - uni-freiburg
+      - elixir-europe
+      - deNBI
+
 mira-miracoli:
     name: Mira Kuntz
     orcid: 0000-0003-4302-5091
@@ -2652,9 +2662,15 @@ tealiie:
 teresa-m:
     name: Teresa Müller
     joined: 2022-09
+    email: [email protected]
+    matrix: 'teresa-m:matrix.org'
+    orcid: 0000-0003-1252-9684
+    linkedin: teresamueller87
+    elixir_node: de
     affiliations:
       - uni-freiburg
       - elixir-europe
+      - deNBI
 
 TanguyGen:
     name: Tanguy Genthon

events/2025-06-30-hts-workshop-freiburg.md

@@ -0,0 +1,134 @@
+---
+layout: event
+title: "From Data to Discovery: Metagenomics, RNA-Seq - NGS Bioinformatics with Galaxy"
+
+description: |
+    This course introduces scientists to the data analysis platform Galaxy. The course is a beginner course; no programming skills are required.
+
+date_start: 2025-06-30
+date_end: 2025-07-04
+
+cost: free
+audience: Scientists with no or little Galaxy experience who want to analyse sequencing data.
+contact_email: [email protected]
+# async: false
+mode: onsite
+
+registration:
+  link: https://forms.gle/AQ7n7zi1rUd995Me9
+  deadline: 2025-05-11
+
+contributions:
+  organisers: [Sch-Da, teresa-m]
+  instructors: [pavanvidem, teresa-m, dianichj, EngyNasr, paulzierep, Minamehr]
+  funding: [eurosciencegateway, deNBI, nfdi4plants]
+
+location:
+  geo:
+    lat: 47.993460
+    lon: 7.845110
+  name: University of Freiburg
+  address: Werthmannstrasse 4
+  postcode: 79104
+  city: Freiburg
+  country: Germany
+
+infrastructure:
+  tiaas: true    # tiaas = Training Infrastructure as a Service, and can be requested (for free) from all major Galaxies
+
+  servers:
+    - server: https://usegalaxy.eu
+      name: Galaxy EU
+
+tags:
+- introduction
+- sequence-analysis
+- transcriptomics
+- single-cell
+- microbiome
+
+# Program of your course
+# Add GTN tutorials by supplying the topic and tutorial name
+program:
+  - section: "Monday: Introduction and Quality Control"  # section title is optional
+    description: We will do at least one coffee break in the morning, one in the afternoon, and a one-hour lunch break around noon.
+    tutorials:
+      - type: custom
+        name: "Welcome"
+        time: "09:15"
+      - name: galaxy-intro-peaks2genes
+        topic: introduction
+      - name: quality-control
+        topic: sequence-analysis
+      - type: custom
+        name: "End"
+        time: "16:00"
+
+  - section: "Tuesday: RNA Sequencing"
+    description: We will do at least one coffee break in the morning, one in the afternoon, and a one-hour lunch break around noon.
+    tutorials:
+      - name: ref-based
+        topic: transcriptomics
+        time: "09:15-17:00"
+
+  - section: "Wednesday: Single-Cell Sequencing"
+    description: We will do at least one coffee break in the morning, one in the afternoon, and a one-hour lunch break around noon.
+    tutorials:
+      - name: scrna-scanpy-pbmc3k
+        topic: single-cell
+        time: "09:15-17:00"
+
+
+  - section: "Thursday: Metagenomics"
+    description:  We will do at least one coffee break in the morning, one in the afternoon, and a one-hour lunch break around noon.
+    tutorials:
+      - type: custom
+        name: "Start"
+        time: "09:15"
+      - name: taxonomic-profiling
+        topic: microbiome
+      - name: diversity
+        topic: microbiome
+      - type: custom
+        name: "End"
+        time: "16:00"
+
+  - section: "Friday: Metagenomics"
+    description:  We will do at least one coffee break in the morning, one in the afternoon, and a one-hour lunch break around noon.
+    tutorials:
+      - name: pathogen-detection-from-nanopore-foodborne-data
+        topic: microbiome
+        time: "09:15-16:00"
+
+---
+# Welcome to the Comprehensive Galaxy Workshop: From Introduction to Advanced Applications
+
+Embark on a deep dive into the world of Galaxy, the leading platform for data-intensive biomedical research. This workshop is designed for researchers, students, and data analysts who wish to
+harness the full potential of Galaxy in transcriptomic, single-cell and metagenomics studies. Whether you're a beginner seeking to understand the basics or an intermediate user looking to refine your skills in specific applications,
+this workshop offers valuable insights and hands-on experiences.
+
+This comprehensive workshop will increase your proficiency in using Galaxy and enhance your ability to conduct sophisticated analyses in various fields of biological research.
+Connect with experts and peers, gain practical skills, and take your research capabilities to the next level.
+
+## Topics
+
+- Galaxy Introduction and Quality Control
+- RNA-seq Analysis
+- Single-Cell sequencing
+- Microbiome Analysis
+
+## Learning Objectives
+
+- To get introduced to Galaxy as a data analysis platform and the GTN training material
+- To learn how to use tools and databases in Galaxy
+- To be able to run different tools and workflows
+
+## Schedule
+
+Please see the Program tab.
+
+## Registration
+
+The number of places in this workshop is limited. The course takes place only in person (not online, not hybrid). There are no fees for the workshop but you need to care for your accommodation, travel costs and catering yourself.
+
+