🔬 PBMC3k Single-Cell RNA-Seq Analysis Using Scanpy

This project presents a full downstream analysis pipeline of the PBMC3k single-cell RNA-seq dataset using the Scanpy library in Python. The dataset contains ~3,000 peripheral blood mononuclear cells from 10X Genomics.

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📌 Objectives

• Perform quality control and filtering
• Normalize data and identify variable genes
• Run PCA, UMAP for dimensionality reduction
• Cluster cells and identify marker genes

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🧰 Tools & Packages

• Scanpy

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📚 Dataset Info

• Source: TENxPBMCData::pbmc3k (Bioconductor)
• ~3,000 PBMCs processed using 10X Genomics Chromium

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🧪 Author

Gunjan Sarode
🌐 LinkedIn | 📫 gunjansarode.bioinfo@gmail.com

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✅ License

This project is for educational and research use.