ArticlePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing2017
RABIX: AN OPEN-SOURCE WORKFLOW EXECUTOR SUPPORTING RECOMPUTABILITY AND INTEROPERABILITY OF WORKFLOW DESCRIPTIONS.
Article in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 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
23 citing papers in PubMed.
- COWID: an efficient cloud-based genomics workflow for scalable identification of SARS-COV-2.Briefings in bioinformatics · 2023Article
- Utility of the Python package Geoweaver_cwl for improving workflow reusability: an illustration with multidisciplinary use cases.Earth science informatics · 2023Article
- Article
- Skyline Batch: An Intuitive User Interface for Batch Processing with Skyline.Journal of proteome research · 2022Article
- CONTROL-CORE: A Framework for Simulation and Design of Closed-Loop Peripheral Neuromodulation Control Systems.IEEE access : practical innovations, open solutions · 2022Article
- Design considerations for workflow management systems use in production genomics research and the clinic.Scientific reports · 2021Article
- Orchestrating an Optimized Next-Generation Sequencing-Based Cloud Workflow for Robust Viral Identification during Pandemics.Biology · 2021Article
- The role of metadata in reproducible computational research.Patterns (New York, N.Y.) · 2021Review
- Software-Defined Workflows for Distributed Interoperable Closed-Loop Neuromodulation Control Systems.IEEE access : practical innovations, open solutions · 2021Article
- Data analysis and modeling pipelines for controlled networked social science experiments.PloS one · 2020Article
- uap: reproducible and robust HTS data analysis.BMC bioinformatics · 2019Article
- Building Containerized Workflows Using the BioDepot-Workflow-Builder.Cell systems · 2019Article
- Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv.GigaScience · 2019Article
- Tibanna: software for scalable execution of portable pipelines on the cloud.Bioinformatics (Oxford, England) · 2019Article
- BioExcel Building Blocks, a software library for interoperable biomolecular simulation workflows.Scientific data · 2019Article
- Article
- SciPipe: A workflow library for agile development of complex and dynamic bioinformatics pipelines.GigaScience · 2019Article
- Common workflow language (CWL)-based software pipeline for de novo genome assembly from long- and short-read data.GigaScience · 2019Article
- Managing genomic variant calling workflows with Swift/T.PloS one · 2019Article
- Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.BMC bioinformatics · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
As biomedical data has become increasingly easy to generate in large quantities, the methods used to analyze it have proliferated rapidly. Reproducible and reusable methods are required to learn from large volumes of data reliably. To address this issue, numerous groups have developed workflow specifications or execution engines, which provide a framework with which to perform a sequence of analyses. One such specification is the Common Workflow Language, an emerging standard which provides a robust and flexible framework for describing data analysis tools and workflows. In addition, reproducibility can be furthered by executors or workflow engines which interpret the specification and enable additional features, such as error logging, file organization, optim1izations to computation and job scheduling, and allow for easy computing on large volumes of data. To this end, we have developed the Rabix Executor, an open-source workflow engine for the purposes of improving reproducibility through reusability and interoperability of workflow descriptions.
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.