Post Tue Nov 17, 2020 12:01 am

2020-Gerber et Robinson-preprint

"censcyt: censored covariates in differential abundance analysis in cytometry"
Reto Gerber, Mark D. Robinson
medRxiv, posted November 10, 2020
https://doi.org/10.1101/2020.11.09.374447

- will update when/if this is peer-reviewed and published

- use simulated datasets for testing various approaches

- reuse the HIV FLOWCAP IV dataset available under http://flowrepository.org/id/FR-FCM-ZZ99. It consists of PBMC samples linked to time to progression to AIDS from HIV+ of 383 patients. This is flow cytometry, but the method being an extension of diffcyt, censcyt could be applied to CyTOF data, IMHO

The tested methods were implemented in R and are submitted to Bioconductor.
The source code is also available on GitHub https://github.com/retogerber/censcyt.
Scripts for reproducing results and figures can be found on https://github.com/retogerber/censcyt_paper_scripts.