freeCount Bioinformatics Analysis Apps on Posit Cloud

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[This article was first published on R – Myscape, and kindly contributed to R-bloggers]. (You can report issue about the content on this page here)Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.OverviewOne way that you can use the freeCount R Shiny applications (apps) online is through Posit Cloud, which lets you access powerful data science tools in your browser without the need for installation or complex configuration.freeCountThe freeCount analysis framework provides a modular set of tools and tutorials for a structured approach to biological count data analysis. Users are guided through common data assessment, processing and analysis approaches.The different analysis tools currently available include: Differential Expression (DE) Analysis – DA Network Analysis – NAFunctional Analysis – FASet Operations – SOPosit CloudPosit Cloud enables you to do, share, teach and learn data science using RStudio or Jupyter Notebooks directly from your browser. Posit Cloud provides a personal workspace that allows you to work on your own content, and you can let your content be viewed by others.StepsThe following steps will walk you through how to run the freeCount apps online using Posit Cloud.Navigate to https://posit.cloud/ and log in (create an account, if necessary)In your workspace, click “New Project” and select “New Project from Git Repository”In the New Project from Git Repository popup window, enter the following in the URL text box and click “OK”: https://github.com/ElizabethBrooks/freeCount Wait for the project to deploy in your Posit Cloud workspace Navigate to the “apps” directory in the file pane (bottom right window)Next, navigate to the “cloud” directory in the file paneSelect the application that you want to run from the list of R shiny app files Click the “Run App” button in the upper right corner of the source paneClick “Yes” on the Install Shiny Package popup windowWait for the necessary R packages to install in your Posit Cloud workspaceDone! Finally, the shiny app should launch and allow you to run the selected analysisStep 1Navigate to https://posit.cloud/ and log in (create an account, if necessary).Step 2In your workspace, click “New Project” and select “New Project from Git Repository”.Step 3In the New Project from Git Repository popup window, enter the following in the URL text box and click “OK”: https://github.com/ElizabethBrooks/freeCount Wait…Wait for the project to deploy in your Posit Cloud workspace.Step 4Navigate to the “apps” directory in the file pane (bottom right window).Step 5Next, navigate to the “cloud” directory in the file pane.Step 6Select the application that you want to run from the list of R shiny app files.Step 7Click the “Run App” button in the upper right corner of the source pane.Step 8Click “Yes” on the Install Shiny Package popup window.Wait…Wait for the necessary R packages to install in your Posit Cloud workspace.Done!Finally, the shiny app should launch and allow you to run the selected analysis.TroubleshootingPosit Cloud R session disconnected – If you are using Google Chrome, try disabling Chrome’s tab discarding feature. Chrome automatically unloads background tabs to save memory.Important NoteNote that not all of the apps or features are available for the cloud version of the freeCount apps due to the limits on the free plan for Posit Cloud.To leave a comment for the author, please follow the link and comment on their blog: R – Myscape.R-bloggers.com offers daily e-mail updates about R news and tutorials about learning R and many other topics. Click here if you're looking to post or find an R/data-science job.Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.Continue reading: freeCount Bioinformatics Analysis Apps on Posit Cloud