ArticleJournal of open source software2021
nf-gwas-pipeline: A Nextflow Genome-Wide Association Study Pipeline.
Article in Journal of open source software, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.
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
16 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Assessment of the functionality and usability of open-source rare variant analysis pipelines.Briefings in bioinformatics · 2025Pooled it
- Whole blood transcriptional signatures of age and survival identified in long life family and integrative longevity omics studies.GeroScience · 2026Article
- A Human Pharmacogenomics Approach Provides Insight Into the Pathogenesis and Pathophysiology of Steroid-Induced Ocular Hypertension.Ophthalmology science · 2026Article
- MOKA: a pipeline for multiomics bridged SNP-set kernel association test.G3 (Bethesda, Md.) · 2026Article
- SAGA (Simplified Association Genome-wide Analyses): a user-friendly Pipeline to Democratize Genome-Wide Association Studies.bioRxiv : the preprint server for biology · 2025Article
- Integrating Artificial Intelligence in Next-Generation Sequencing: Advances, Challenges, and Future Directions.Current issues in molecular biology · 2025Review
- Metabolite signatures of chronological age, aging, survival, and longevity.Cell reports · 2024Article
- Performing highly parallelized and reproducible GWAS analysis on biobank-scale data.NAR genomics and bioinformatics · 2024Article
- yQTL Pipeline: a structured computational workflow for large scale quantitative trait loci discovery and downstream visualization.bioRxiv : the preprint server for biology · 2024Article
- yQTL Pipeline: A structured computational workflow for large scale quantitative trait loci discovery and downstream visualization.PloS one · 2024Article
- COSGAP: COntainerized Statistical Genetics Analysis Pipelines.Bioinformatics advances · 2024Article
- Rare genetic variants correlate with better processing speed.Neurobiology of aging · 2023Article
- A Genome-Wide Association Study of 2304 Extreme Longevity Cases Identifies Novel Longevity Variants.International journal of molecular sciences · 2022Article
- H3AGWAS: a portable workflow for genome wide association studies.BMC bioinformatics · 2022Article
- Evaluation of GENESIS, SAIGE, REGENIE and fastGWA-GLMM for genome-wide association studies of binary traits in correlated data.Frontiers in genetics · 2022Article
- snpQT: flexible, reproducible, and comprehensive quality control and imputation of genomic data.F1000Research · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
A tool for conducting Genome-Wide Association Study (GWAS) in a systematic, automated and reproducible manner is overdue. We developed an automated GWAS pipeline by combining multiple analysis tools - including bcftools, vcftools, the R packages SNPRelate/GENESIS/GMMAT and ANNOVAR - through Nextflow, which is a portable, flexible, and reproducible reactive workflow framework for developing pipelines. The GWAS pipeline integrates the steps of data quality control and assessment and genetic association analyses, including analysis of cross-sectional and longitudinal studies with either single variants or gene-based tests, into a unified analysis workflow. The pipeline is implemented in Nextflow, dependencies are distributed through Docker, and the code is publicly available on Github.
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.