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timbitz / Whippet.jl

Lightweight and Fast; RNA-seq quantification at the event-level
MIT License
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how does whippet define exon skip events? #107

Open mhjiang97 opened 3 years ago

mhjiang97 commented 3 years ago

can Whippet detect exon skip events?

it seems that CE (core exon) doesn't contain exon skip.

Thank you!

mhjiang97 commented 3 years ago

Dear Zheng,

Many thanks for the reply!

Best, Minghao

2020年12月27日 22:48，Zheng An notifications@github.com 写道：

can Whippet detect exon skip events?

it seems that CE (core exon) doesn't contain exon skip.

Thank you!

Hi,

I also noticed this and I found that if we need to calculate the number of exon skipping events, we need to check Inc_Paths and Exc_Paths in your psi file. For all CE node, we need to make sure that it occurs in Exc_Paths so we can identify this event as exon skipping event.

Best, Zheng

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OlgaVT commented 3 years ago

Hi, I am sorry - I do not see the reply but have the same question. Thank you!

mhjiang97 commented 3 years ago

Hi, I am sorry - I do not see the reply but have the same question. Thank you!

Hi,

click the button ... at the end of my reply above, and you will find Zheng's advice~

Cheers, Minghao

OlgaVT commented 3 years ago

Oh, I see. Sorry. Thank you!