---
title: "Hands On Session 3: single-cell data preparation and clustering"
canonical: "https://help.biobam.com/space/BTP/3313303571/Hands%20On%20Session%203%3A%20single-cell%20data%20preparation%20and%20clustering"
format: markdown
---
**Duration:** 60 min

**Hands-on material: **

- [Link to Drive](https://drive.google.com/drive/folders/1Nmh8_ay8tT_lprnrcX-xT2tAS4cNgjIv?usp=drive_link)
  - Data and scripts: `HandsOn3_SingleCell_Data_QC/` folder
  - Script: `hands-on-session3_data-preparation-and-clustering.Rmd`


**Outline:**

- Data loading and object creation:
  - SeuratObject
  - SingleCellExperiment
  - Converting between formats
- Data visualization and exploratory analysis using Principal Component Analysis (PCA)
- Quality control (QC):
  - Cell QC
  - Feature QC
- Normalization and feature selection:
  - Normalization
  - Feature selection
- Cell cycle scoring
- Cell clustering