Single cell visulaisation webtool

Question

[HK]

Hi All,

I have been working on a single cell data (project) and now interested to make an interactive webpage for my project. Actually I want to know how to start with making a Single Cell Portal (web application designed for viewing single-cell genomics data).

Purpose is to share our data with other researchers. Can you kindly guide me how to create cloud-based web tool for easy gene searches, which does not require complicated computer programming skills.

For example, something like this: https://kanakohayashilab.org/hayashi/en/mouse/peritoneal.immune.cells/

Most bioinformatics web applications only use the browser to visualize results that were computed elsewhere, e.g., cellxgene, Epiviz , Cirrocumulus, Vitessce , HiGlass and every R/Shiny application ever.

[Mensur Dlakic]

Any reason you are not contacting the lab that has implemented the website you like? The contact info is right there.

[jared.andrews07]

which does not require complicated computer programming skills.

Given what you want to do, some amount of programming skills will be required. Many of the projects you mention have entire teams behind them.

cellxgene is relatively trivial to host with your own data, and it allows simple gene searches as you seem to want. A Shiny app to do the same would also be quite simple to implement.

Answer 1

[antonioggsousa]

Hi,

If you're familiar with R and markdown, I would recommend flexdashboards, a package for building dashboards in R.

• flexdashboard website: https://pkgs.rstudio.com/flexdashboard/

The website above comprises several examples, documentation and templates that you can start with.

I hope it helps,

Best regards,

António