MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities

SUMMARY: We 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...

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Detalles Bibliográficos
Autores principales: Reeder, Janina, Huang, Mo, Kaminker, Joshua S, Paulson, Joseph N
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8193707/
https://www.ncbi.nlm.nih.gov/pubmed/32960962
http://dx.doi.org/10.1093/bioinformatics/btaa838
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author Reeder, Janina
Huang, Mo
Kaminker, Joshua S
Paulson, Joseph N
author_facet Reeder, Janina
Huang, Mo
Kaminker, Joshua S
Paulson, Joseph N
author_sort Reeder, Janina
collection PubMed
description SUMMARY: We 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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spelling pubmed-81937072021-06-14 MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities Reeder, Janina Huang, Mo Kaminker, Joshua S Paulson, Joseph N Bioinformatics Applications Notes SUMMARY: We 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. Oxford University Press 2020-10-30 /pmc/articles/PMC8193707/ /pubmed/32960962 http://dx.doi.org/10.1093/bioinformatics/btaa838 Text en © The Author(s) 2020. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Reeder, Janina
Huang, Mo
Kaminker, Joshua S
Paulson, Joseph N
MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title_full MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title_fullStr MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title_full_unstemmed MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title_short MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
title_sort microbiomeexplorer: an r package for the analysis and visualization of microbial communities
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8193707/
https://www.ncbi.nlm.nih.gov/pubmed/32960962
http://dx.doi.org/10.1093/bioinformatics/btaa838
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AT paulsonjosephn microbiomeexploreranrpackagefortheanalysisandvisualizationofmicrobialcommunities

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