ArticleCell systems2019
Building Containerized Workflows Using the BioDepot-Workflow-Builder.
Article in Cell systems, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
14 citing papers in PubMed.
- Graphical and interactive spatial proteomics image analysis workflow.GigaByte (Hong Kong, China) · 2026Article
- Single-cell RNA sequencing data processing using cloud-based serverless computing.GigaByte (Hong Kong, China) · 2026Article
- User-friendly scheduler Using a hybrid architecture and supercomputing for big data processing.bioRxiv : the preprint server for biology · 2025Article
- Biodepot Launcher: an app to install, manage and launch bioinformatics workflows.GigaByte (Hong Kong, China) · 2025Article
- Harmonizing and integrating the NCI Genomic Data Commons through accessible, interactive, and cloud-enabled workflows.PloS one · 2025Article
- Rapid detection of myeloid neoplasm fusions using single-molecule long-read sequencing.PLOS global public health · 2023Article
- Cloud-enabled Biodepot workflow builder integrates image processing using Fiji with reproducible data analysis using Jupyter notebooks.Scientific reports · 2022Article
- The role of metadata in reproducible computational research.Patterns (New York, N.Y.) · 2021Review
- A graphical, interactive and GPU-enabled workflow to process long-read sequencing data.BMC genomics · 2021Article
- Perspectives on automated composition of workflows in the life sciences.F1000Research · 2021Article
- Automated Isoform Diversity Detector (AIDD): a pipeline for investigating transcriptome diversity of RNA-seq data.BMC bioinformatics · 2020Article
- ARMOR: AnG3 (Bethesda, Md.) · 2019Article
- Reproducible Bioconductor workflows using browser-based interactive notebooks and containers.Journal of the American Medical Informatics Association : JAMIA · 2018Article
- Bio-Docklets: virtualization containers for single-step execution of NGS pipelines.GigaScience · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors.
Funding
Abstract
We present the BioDepot-workflow-builder (Bwb), a software tool that allows users to create and execute reproducible bioinformatics workflows using a drag-and-drop interface. Graphical widgets represent Docker containers executing a modular task. Widgets are linked graphically to build bioinformatics workflows that can be reproducibly deployed across different local and cloud platforms. Each widget contains a form-based user interface to facilitate parameter entry and a console to display intermediate results. Bwb provides tools for rapid customization of widgets, containers, and workflows. Saved workflows can be shared using Bwb's native format or exported as shell scripts.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.