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Could we apply this method to Visium data (No polyA-tailed method)? #205

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oghzzang opened this issue Nov 20, 2023 · 0 comments
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@oghzzang
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Dear velocyto team
I’m a user of velocyto.
I have a question.

I have a visium sequenced data and I attached the detailed information.
image

https://www.10xgenomics.com/support/spatial-gene-expression-ffpe/documentation/workflows/cytassist-ffpe/steps/experimental-design-and-planning

In this setting, can I measure proportion of unspliced & spliced RNA?

To calculate the RNA velocity, we need to calculate the proportion.
And, this method is commonly used to analyse scRNA-seq dataset that have poly A tail.

But, my visium data is derived from probe-captured library.

So, I don’t think I can get the unspliced & spliced mRNA proportion.

What do you think about that?

Many thanks.

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