Fearghal O'Donncha, Yihao Hu, et al.
Ecol. Inform.
With mass and flow cytometry, millions of single-cell profiles with dozens of parameters can be measured to comprehensively characterize complex tumor ecosystems. Here, we present scQUEST, an open-source Python library for cell type identification and quantification of tumor ecosystem heterogeneity in patient cohorts. We provide a step-by-step protocol on the application of scQUEST on our previously generated human breast cancer single-cell atlas using mass cytometry and discuss how it can be adapted and extended for other datasets and analyses.
Fearghal O'Donncha, Yihao Hu, et al.
Ecol. Inform.
Jannis Born, Matteo Manica
ICLR 2022
Aditya Kashyap, Maria Anna Rapsomaniki, et al.
TIBTECH
Simone Magnani, Stefano Braghin, et al.
Big Data 2023