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

Ekdahl, Ludvig LU ; Arrizabalaga, Antton Lamarca LU ; Ali, Zain LU ; Cafaro, Caterina LU ; Lopez de Lapuente Portilla, Aitzkoa LU and Nilsson, Björn LU (2023) In Bioinformatics Advances 3(1).
Abstract

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.

Please use this url to cite or link to this publication:
author
; ; ; ; and
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Bioinformatics Advances
volume
3
issue
1
article number
vbad103
publisher
Oxford University Press
external identifiers
  • pmid:37600847
  • scopus:85170072057
ISSN
2635-0041
DOI
10.1093/bioadv/vbad103
language
English
LU publication?
yes
id
80e05ddf-ef96-4db3-bdc8-adbb3357241a
date added to LUP
2023-11-03 11:06:55
date last changed
2024-04-19 03:31:44
@article{80e05ddf-ef96-4db3-bdc8-adbb3357241a,
  abstract     = {{<p>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.</p>}},
  author       = {{Ekdahl, Ludvig and Arrizabalaga, Antton Lamarca and Ali, Zain and Cafaro, Caterina and Lopez de Lapuente Portilla, Aitzkoa and Nilsson, Björn}},
  issn         = {{2635-0041}},
  language     = {{eng}},
  number       = {{1}},
  publisher    = {{Oxford University Press}},
  series       = {{Bioinformatics Advances}},
  title        = {{AliGater : a framework for the development of bioinformatic pipelines for large-scale, high-dimensional cytometry data}},
  url          = {{http://dx.doi.org/10.1093/bioadv/vbad103}},
  doi          = {{10.1093/bioadv/vbad103}},
  volume       = {{3}},
  year         = {{2023}},
}