AliGater: a framework for the development of bioinformatic pipelines for large-scale, high-dimensional cytometry data

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 anal...

Descripción completa

Detalles Bibliográficos
Autores principales: Ekdahl, Ludvig, Arrizabalaga, Antton Lamarca, Ali, Zain, Cafaro, Caterina, de Lapuente Portilla, Aitzkoa Lopez, Nilsson, Björn
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Application Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10438955/
https://www.ncbi.nlm.nih.gov/pubmed/37600847
http://dx.doi.org/10.1093/bioadv/vbad103
Descripción
Sumario: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

Ejemplares similares