ArticleBioinformatics (Oxford, England)2021
MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities.
Article in Bioinformatics (Oxford, England), 2021. 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
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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.
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Who cites it
14 citing papers in PubMed.
- Sinonasal microbiome remains stable during dupilumab therapy in chronic rhinosinusitis: a pilot study.European archives of oto-rhino-laryngology : official journal of the European Federation of Oto-Rhino-Laryngological Societies (EUFOS) : affiliated with the German Society for Oto-Rhino-Laryngology - Head and Neck Surgery · 2026Article
- MiRQuery: a user-friendly web app for the interactive analysis and visualization of microRNA sequencing data.BMC bioinformatics · 2026Article
- phylobar: an R package for multiresolution compositional barplots in omics studies.Bioinformatics (Oxford, England) · 2026Article
- First-year dynamics of the anaerobic microbiome and archaeome in infants' oral and gastrointestinal systems.mSystems · 2025Article
- In-hospital areas with distinct maintenance and staff/patient traffic have specific microbiome profiles, functions, and resistomes.mSystems · 2024Article
- Snowflake: visualizing microbiome abundance tables as multivariate bipartite graphs.Frontiers in bioinformatics · 2024Article
- Dissecting the human gut microbiome to better decipher drug liability: A once-forgotten organ takes center stage.Journal of advanced research · 2023Review
- ggpicrust2: an R package for PICRUSt2 predicted functional profile analysis and visualization.Bioinformatics (Oxford, England) · 2023Article
- Clinical NEC prevention practices drive different microbiome profiles and functional responses in the preterm intestine.Nature communications · 2023Article
- Antibiotic prophylaxis and hospitalization of horses subjected to median laparotomy: gut microbiota trajectories and abundance increase ofFrontiers in microbiology · 2023Article
- Article
- Contamination detection and microbiome exploration with GRIMER.GigaScience · 2022Article
- Chemotherapy-associated oral microbiome changes in breast cancer patients.Frontiers in oncology · 2022Article
- Exploring the Microbiome Analysis and Visualization Landscape.Frontiers in bioinformatics · 2021Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
summaryWe developed the MicrobiomeExplorer R package to facilitate the analysis and visualization of microbial communities. The MicrobiomeExplorer R package allows a user to perform typical microbiome analytic workflows and visualize their results, either through the command line or an interactive Shiny application included with the package. In addition to applying common analytical workflows, the application enables automated analysis report generation. AVAILABILITY AND IMPLEMENTATION: Available at https://github.com/zoecastillo/microbiomeExplorer. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.