Triple-negative breast cancer and chemotherapy response

This repository includes the codes and analysis instructions for the manuscript: 'Decoding the Archetypes and Ecotypes of Triple-Negative Breast Cancer in Response to Chemotherapy'.

Contents

Folder	Purpose	Visibility
analysis	Computational analysis	public
data	Processed Seurat objects to facilitate data analysis	private
supplementary data	Supplementary tables in our manuscript	private
other data	Public data we used in this study	public

Browsing single-cell data

We provided 2 ways to quickly browse our single-cell data and perform data reanalysis or visualization:

1. Cloud platform of CELLxGENE: https://cellxgene.cziscience.com/collections/ceef2841-5333-46ac-92ef-ccbe0c20fe55
2. Local computer:
   • Using R language: https://navinlabcode.github.io/tnbc-chemo/
   • Using Python language: overview_CellxGene.ipynb