Course curriculum

    1. Getting to know you

    2. Introduction to Single-Cell RNA Seq

    3. Experimental Design

    1. From FASTQ Files to Count Matrices - Part 1

    2. From FASTQ Files to Count Matrices - Part 2

    3. File Conversion

    4. Get started with Cellenics®

    5. Introduction to Cellenics®

    6. File and Metadata Upload

    1. Introduction

    2. Step 1 - Classifier Filter

    3. Step 2 - Cell Size Distribution Filter

    4. Step 3 - Mitochondrial Content Filter

    5. Step 4 - Number of genes vs UMIs filter

    6. Step 5 - Doublet Filter

    7. Step 6 & 7 - Data Integration & Configuring Embedding

    8. Real World Examples - Part 1

    9. Real World Examples - Part 2

    10. Real World Examples - Part 3

    1. Data Integration step - part 1 - Normalization

    2. Data Integration step - part 2 - Feature selection

    3. Data Integration step - part 3 - Dimensionality reduction

    4. Data Integration step - part 4 - Data integration

    5. Data Integration step - part 5 - How to assess the quality of data integration

    6. Data Integration step - part 6 - Exclusion of specific gene categories

    7. Data integration step - part 7 - Downsampling

    1. Data Exploration - part 1 - Embedding

    2. Data Exploration - part 2 - Clustering

    3. Data Exploration - part 3 - Cell sets

    4. Data Exploration - part 4 - Cell type annotation

    5. Data Exploration - part 5 - Heatmap and marker genes

    6. Data Exploration - part 6 - Differential expression analysis

    7. Data Exploration - part 7 - Pathway analysis

    1. Plots and Tables - part 1 - Cell sets and Metadata

    2. Plots and Tables - part 2 - Trajectory analysis

    3. Plots and Tables - part 3 - Gene expression

    4. Plots and Tables - part 4 - Differential expression

    5. Plots and Tables - part 5 - Reproducing figures from a paper

About this course

  • 41 lessons
  • 10.5 hours of video content

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