VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots

Abstract Comparative genome- and proteome-wide screens yield large amounts of data. To efficiently present such datasets and to simplify the identification of hits, the results are often presented in a type of scatterplot known as a volcano plot, which shows a measure of effect size versus a measure...

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Autores principales:	Joachim Goedhart, Martijn S. Luijsterburg
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/984e2ce723784055a27da67c78a057d9
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spelling	oai:doaj.org-article:984e2ce723784055a27da67c78a057d92021-12-02T11:40:49ZVolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots10.1038/s41598-020-76603-32045-2322https://doaj.org/article/984e2ce723784055a27da67c78a057d92020-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-76603-3https://doaj.org/toc/2045-2322Abstract Comparative genome- and proteome-wide screens yield large amounts of data. To efficiently present such datasets and to simplify the identification of hits, the results are often presented in a type of scatterplot known as a volcano plot, which shows a measure of effect size versus a measure of significance. The data points with the largest effect size and a statistical significance beyond a user-defined threshold are considered as hits. Such hits are usually annotated in the plot by a label with their name. Volcano plots can represent ten thousands of data points, of which typically only a handful is annotated. The information of data that is not annotated is hardly or not accessible. To simplify access to the data and enable its re-use, we have developed an open source and online web tool with R/Shiny. The web app is named VolcaNoseR and it can be used to create, explore, label and share volcano plots ( https://huygens.science.uva.nl/VolcaNoseR ). When the data is stored in an online data repository, the web app can retrieve that data together with user-defined settings to generate a customized, interactive volcano plot. Users can interact with the data, adjust the plot and share their modified plot together with the underlying data. Therefore, VolcaNoseR increases the transparency and re-use of large comparative genome- and proteome-wide datasets.Joachim GoedhartMartijn S. LuijsterburgNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-5 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Joachim Goedhart Martijn S. Luijsterburg VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
description	Abstract Comparative genome- and proteome-wide screens yield large amounts of data. To efficiently present such datasets and to simplify the identification of hits, the results are often presented in a type of scatterplot known as a volcano plot, which shows a measure of effect size versus a measure of significance. The data points with the largest effect size and a statistical significance beyond a user-defined threshold are considered as hits. Such hits are usually annotated in the plot by a label with their name. Volcano plots can represent ten thousands of data points, of which typically only a handful is annotated. The information of data that is not annotated is hardly or not accessible. To simplify access to the data and enable its re-use, we have developed an open source and online web tool with R/Shiny. The web app is named VolcaNoseR and it can be used to create, explore, label and share volcano plots ( https://huygens.science.uva.nl/VolcaNoseR ). When the data is stored in an online data repository, the web app can retrieve that data together with user-defined settings to generate a customized, interactive volcano plot. Users can interact with the data, adjust the plot and share their modified plot together with the underlying data. Therefore, VolcaNoseR increases the transparency and re-use of large comparative genome- and proteome-wide datasets.
format	article
author	Joachim Goedhart Martijn S. Luijsterburg
author_facet	Joachim Goedhart Martijn S. Luijsterburg
author_sort	Joachim Goedhart
title	VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
title_short	VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
title_full	VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
title_fullStr	VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
title_full_unstemmed	VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots
title_sort	volcanoser is a web app for creating, exploring, labeling and sharing volcano plots
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/984e2ce723784055a27da67c78a057d9
work_keys_str_mv	AT joachimgoedhart volcanoserisawebappforcreatingexploringlabelingandsharingvolcanoplots AT martijnsluijsterburg volcanoserisawebappforcreatingexploringlabelingandsharingvolcanoplots
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VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots

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