Materials used in TA sessions of the single-cell bioinformatics course offered in Winter 2022 Semester at Saarland University.
Week 1: Introduction to R
Week 2: Setting up the environment, read in the data and an introduction to Seurat
Week 3: Quality Control (Batch-effect, Thresholds, Doublets)
Week 4: Embedding, DEGs, cell type-annotation with marker-genes (Showed code-based examples related to the project, the scripts will not be shared.)
Week 5: Trajectory inference and cell-cell communication
PROJECT I DEADLINE: 25/11/22 23:59
Week 6 1.12.2022: Installation of ArchR, Pre-Processing, evtl. Peak-Calling
Week 7 08.12.2021: Peak-Calling/ Gene-Activity/TF motifs, differential Accessibility and Footprints
Week 8 15.12.2021: Office hour
Week 9 22.12.2022: Online Office-Hour
PROJECT II DEADLINE: 23/12/2022 23:59
Week 10 05.01.2022: Setup, Pre-processing, differential analysis
Week 11 12.01.2022 Advanced analysis methodologies
Week 12 19.01.2022 Office hour
PROJECT III DEADLINE: 27/01/2023 23:59