Single Cell RNA-Seq Data Analysis Pipeline

Attribution

The pipeline was developed by Aarón Vázquez-Jiménez in the Human Systems Biology Group at INMEGEN. This pipeline was used to study functional heterogeneity that you can cite.

Getting Started

This pipeline was used to study functionally heterogeneity in the MCF7 cell line using Multicellular Tumor Spheroids as tumor model. If you have any questions contact us at avazquezj(at)inmegen.gob.mx and oresendis(at)inmegen.gob.mx.

The pipeline is structured as follows:

• Sample Processing
  • Data Availability
• Knee filter
• Gene Over-dispersion
• Gene number selection
• Dimensionality Reduction
• Clustering
  • Kmeans
  • EM
• Enrichment Analysis
  • Interaction Map
• Differential Gene Expression Analysis
  • Genetic Signatures