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  • Single cell RNA-seq analysis using Python 2025
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Single cell RNA-seq analysis using Python 2025

    • Overview
    • Search
    • Introduction
      • Course organisers
      • Trainer biographies
      • Participant biographies
    • Code of conduct
    • Pre-course challenges
    • Programme
      • Day one
        • Welcome to EMBL-EBI and introductions
        • Introduction to single cell technologies
        • Wet-lab overview 
        • Dry-lab overview
        • Experimental Design and Q&A
      • Day two
        • Designing your analysis
        • Getting set up: infrastructure terms
        • Raw reads to expression matrix
        • QC, pre-processing and normalisation
        • Feature selection, dimensionality reduction, clustering — Talk and Q&A
        • Batch correction and data set integration – Talk and Q&A
      • Day three
        • Feature Selection, Dimensionality Reduction, and Data Integration — Practicals
        • Clustering and Cluster Marker Genes — Practicals
        • Differential Expression and Differential Abundance Analysis
      • Day four
        • Spatial transcriptomics
        • Single Cell Expression Atlas and Single cell data submission
        • Group project
      • Day five
        • Group project
        • Course wrap-up and survey
    • Posters and networking
    • Help sheets
      • Zoom
      • Gather Town
      • Slack
      • Virtual machines
    • Further learning