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Managing Workflow Executions with WESkit

delete2026-02-24
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OA
AI
V
Valentin Schneider-Lunitz
P
Philip Kensche
L
Landfried Kraatz
P
Philipp Strubel
S
Stefan Borufka
G
Gurudeep Parala
A
Alexander Kanitz
R
Roland Eils
I
Ivo Buchhalter *
S
Sven Twardziok *
DOI：10.1093/bioinformatics/btag091delete
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Abstract

Abstract

En 中文
In biomedical research, managing computational workflows across numerous projects—with varying parameters, tools, and environments—creates major challenges in scalability, reproducibility, and collaboration. Here we present WESkit, an implementation of the Global Alliance for Genomics and Health (GA4GH) Workflow Execution Service (WES) interface, designed to streamline the execution, monitoring, and documentation of data processing workflows. It addresses the complexities involved in managing numerous executions with varying parameters across diverse research projects. Supporting both Snakemake and Nextflow, the system enables consistent automation and centralized monitoring, which benefits research groups aiming for long-term reproducibility and scalable collaboration. Its suitability for larger teams and service units is further enhanced by seamless integration into cloud environments, contributing to the GA4GH cloud framework.
Keywords:
WESkit
Workflow Execution Service
Reproducibility
Computational Workflows
Cloud Integration

Journal

Bioinformatics cover
Bioinformatics
IF:
5.4
Papers:
1.1K
Citations:
17.9W

Organization

B
Berlin Institute of Health at Charité – Universitätsmedizin Berlin
Scholars:
42
Papers: 9
Citations: 0
U
University of Basel
Scholars:
3.1W
Papers: 2.4W
Citations: 38
D
deutsches krebsforschungszentrum
Scholars:
14
Papers: 5
Citations: 0
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