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AliGater: a framework for the development of bioinformatic pipelines for large-scale, high-dimensional cytometry data
Ludvig Ekdahl1,2, Antton Lamarca Arrizabalaga1,2, Zain Ali1,2
1Lund Stem Cell Center, Lund University, Lund 221 84, Sweden.
Motivation:
AliGater is an open-source framework to accelerate the development of bioinformatic pipelines for the analysis of large-scale, high-dimensional flow cytometry data. AliGater provides a Python package for automatic feature extraction workflows, as well as building blocks to construct analysis pipelines.
Results:
We illustrate the use of AliGater in a high-resolution flow cytometry-based genome-wide association study on 46 immune cell populations in 14 288 individuals.
Availability And Implementation:
Source code and documentation at https://github.com/LudvigEk/aligater and https://aligater.readthedocs.io.
