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Seed: a user-friendly tool for exploring and visualizing microbial community data.

Beck D, Dennis C, Foster JA - Bioinformatics (2014)

Bottom Line: Seed is written in R using the Shiny library.This provides access to powerful R-based functions and libraries through a simple user interface.Seed allows users to explore ecological datasets using principal coordinate analyses, scatter plots, bar plots, hierarchal clustering and heatmaps.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA.

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This figure shows Seed’s simple web-based interface. The stacked bar plot shown here is based on data originally published by Ravel et al.
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Related In: Results  -  Collection

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getmorefigures.php?uid=PMC4325548&req=5

btu693-F1: This figure shows Seed’s simple web-based interface. The stacked bar plot shown here is based on data originally published by Ravel et al.

Mentions: Seed is a web-based application, which may be installed locally or hosted on a remote server. When running Seed from a central server, users can access it through a web browser and are not required to install it locally. This means non-expert users can quickly and easily begin using Seed, even without local installations of R. Additionally, updates to R, Shiny, Seed and underlying packages can be done seamlessly and invisibly to the end user. The use of a web browser also provides a familiar interface to most users, allowing them to quickly and easily learn to use Seed. The user interface for seed can be seen in Figure 1.Fig. 1.


Seed: a user-friendly tool for exploring and visualizing microbial community data.

Beck D, Dennis C, Foster JA - Bioinformatics (2014)

This figure shows Seed’s simple web-based interface. The stacked bar plot shown here is based on data originally published by Ravel et al.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4325548&req=5

btu693-F1: This figure shows Seed’s simple web-based interface. The stacked bar plot shown here is based on data originally published by Ravel et al.
Mentions: Seed is a web-based application, which may be installed locally or hosted on a remote server. When running Seed from a central server, users can access it through a web browser and are not required to install it locally. This means non-expert users can quickly and easily begin using Seed, even without local installations of R. Additionally, updates to R, Shiny, Seed and underlying packages can be done seamlessly and invisibly to the end user. The use of a web browser also provides a familiar interface to most users, allowing them to quickly and easily learn to use Seed. The user interface for seed can be seen in Figure 1.Fig. 1.

Bottom Line: Seed is written in R using the Shiny library.This provides access to powerful R-based functions and libraries through a simple user interface.Seed allows users to explore ecological datasets using principal coordinate analyses, scatter plots, bar plots, hierarchal clustering and heatmaps.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA.

Show MeSH