maplet: an extensible R toolbox for modular and reproducible metabolomics pipelines.
Journal
Bioinformatics (Oxford, England)
ISSN: 1367-4811
Titre abrégé: Bioinformatics
Pays: England
ID NLM: 9808944
Informations de publication
Date de publication:
27 01 2022
27 01 2022
Historique:
received:
09
06
2021
revised:
24
09
2021
accepted:
22
10
2021
pubmed:
26
10
2021
medline:
3
2
2023
entrez:
25
10
2021
Statut:
ppublish
Résumé
This article presents maplet, an open-source R package for the creation of highly customizable, fully reproducible statistical pipelines for metabolomics data analysis. It builds on the SummarizedExperiment data structure to create a centralized pipeline framework for storing data, analysis steps, results and visualizations. maplet's key design feature is its modularity, which offers several advantages, such as ensuring code quality through the maintenance of individual functions and promoting collaborative development by removing technical barriers to code contribution. With over 90 functions, the package includes a wide range of functionalities, covering many widely used statistical approaches and data visualization techniques. The maplet package is implemented in R and freely available at https://github.com/krumsieklab/maplet.
Identifiants
pubmed: 34694386
pii: 6409851
doi: 10.1093/bioinformatics/btab741
pmc: PMC8796365
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1168-1170Subventions
Organisme : NIA NIH HHS
ID : R01 AG069901
Pays : United States
Organisme : NIA NIH HHS
ID : RF1 AG058942
Pays : United States
Organisme : NIA NIH HHS
ID : RF1 AG059093
Pays : United States
Organisme : NIA NIH HHS
ID : U01 AG061359
Pays : United States
Organisme : Biomedical Research Program' funds at Weill Cornell Medical College in Qatar
Organisme : Qatar Foundation and multiple grants from the Qatar National Research Fund (QNRF)
Organisme : NIA NIH HHS
ID : U19 AG063744
Pays : United States
Informations de copyright
© The Author(s) 2021. Published by Oxford University Press.