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pachterlab / kallistobustools

kallisto | bustools workflow for pre-processing single-cell RNA-seq data
https://kallistobus.tools/
MIT License
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RNA isoform/alternative splicing analysis #8

Open grimwoo opened 4 years ago

grimwoo commented 4 years ago

Hi, Kallisto/BUSTools was recommended by Seurat to perform RNA isoform/alternative splicing analysis. However, I didn't find the related workflow and found nothing in GitHub with the key word "isoform". This may due to my poor understanding of this package. Coud anyone help me ?

sbooeshaghi commented 4 years ago

What is the datatype, 3' or full length (ie Smart-seq?)

grimwoo commented 4 years ago

@sbooeshaghi Thank you for the early reply. The datatype is 10x single cell RNA seq ( 3').

LuoJulia commented 4 years ago

Hi, was just wondering if there's been any update to this question? I'm interested in alternative splicing analysis as well.

tstannius commented 4 years ago

Dear Devs

I am also interested in alternative splicing analysis (10X with hashtag oligo data) :-)

gadepallivs commented 1 year ago

@sbooeshaghi Hello, is there any update on the Differential expression with equivalence classes in TCC matrix (coming soon) using the kb-python ?