Question

Any recommended way to view scRNAseq results in an interactive format?

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9 weeks ago

Pei ▴ 200

Hello!

I wish to know if anyone could recommend some way to view/examine scRNAseq results in an interactive format, where we could easily look up the expression of specific genes in the different cell type. I am going to present such results to my PI who made this suggestion. I am considering just using seurat on my R studio but wondering if there is any more popular way?

Thank you!

RNA-seq single-cell • 341 views

ADD COMMENT • link 8 weeks ago by Pei ▴ 200

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you can make a Shiny app

ADD REPLY • link 9 weeks ago by QX ▴ 60

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Yes, and with the help of ShinyCell - https://github.com/SGDDNB/ShinyCell

Cheers!

ADD REPLY • link 8 weeks ago by Pei ▴ 200

score 2 · Answer 1 · 2024-07-02

10x makes loupe browser available to view analyzed data https://www.10xgenomics.com/support/software/loupe-browser/latest

You can use https://www.10xgenomics.com/support/software/loupe-browser/latest/tutorials/introduction/lb-louper to create the necessary output starting with your Seurat object. That could be a simple/free option for your PI.