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Workshop on Single-cell Data Analysis with Galaxy

In this workshop, scientists learn single-cell data analysis using Galaxy. There is no requirement of any programming skills.

  • Date: October 09 - 13, 2023
  • Location: University of Freiburg, Germany
  • Contact: Pavankumar Videm

General information

  • Date: October 09-13th, 2023
  • Format: on-site
  • Location: PC-Pool room 3, Werthmannstraße 4, 79104 Freiburg
  • Time: 9am-5pm CEST
  • Cost: Free
  • Contact: Pavankumar Videm (videmp@informatik.uni-freiburg.de)

Pedagogical information

Target Audience: Scientists with no or little Galaxy experience who want to analyse single-cell sequencing data.

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
  • Preprocessing, clustering, and downstream analysis of single-cell data

Training material: For the hands-on course, we will use the training material from the Galaxy Training Network.

Preliminary schedule

Day Start End Session
October 09th 9:00am 3pm Welcome - Galaxy introduction (optional, if you know Galaxy usage)
October 10th 9:00am 5pm Introduction to single-cell RNA-seq, single-cell matrix creation and preprocessing
October 11th 9:00am 5pm Normalization, clustering, marker gene identification, cell type annotation
October 12th 9:00am 5pm Trajectory inference
October 13th 9:00am 5pm Single-cell ATAC-seq data analysis