These are my personal notes from the Single-Cell Bioinformatics course offered at Saarland University, taught by Prof. Fabian Müller.
The notes are organized by lecture topic and structured using Bookdown. Content is adapted from lecture slides, classroom discussions, and reference materials provided during the course.
- Lecture 01: Introduction
- Lecture 02a: Motivation – Part I
- Lecture 02b: Motivation – Part II
- Lecture 03: scRNA-seq: Methods
- Lecture 04: scRNA-seq: Data Processing – Part I
- Lecture 05: scRNA-seq: Data Processing – Part II
- Lecture 06: scRNA-seq: Data Analysis
- Lecture 07: Differential Expression and Pathways
- Lecture 08: Trajectories
- Lecture 09: Single-Cell Epigenomics: Methods
- Lecture 10: scATAC-seq Analysis
- Lecture 11: Single-cell Multiomics: Methods
- Lecture 12: Single-cell Data Integration
- Lecture 13: Multiomics Integration: Cell Fate
- Lecture 14: Spatial Methods
- Lecture 15: Spatial Analysis
- Lecture 16: Spatial *Omics
- Lecture 17: Single-cell DNA Sequencing
- Lecture 18: Single-cell Bacteria RNA Sequencing
- Lecture 19: Single Molecule Sequencing
- Lecture 20: Single-cell Proteomics and Metabolomics
- Lecture 21: Multiscale Modeling
- Lecture 22: Single-cell Perturbation
This is a personal learning project. The material may contain simplifications, omissions, or interpretations made during note-taking. It is not an official textbook and should be used as a companion to the original course content. Contributions and corrections are welcome.