Does a low `unspliced` proportion have an impact on velocity calculation ?

velocyto-team / velocyto.py

RNA velocity estimation in Python

http://velocyto.org/velocyto.py/

BSD 2-Clause "Simplified" License

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Open jiangpuxuan opened 2 years ago

jiangpuxuan commented 2 years ago

Hi, I have many germ cell scRNA datasets, and all of them have a very low unspliced proportion ( about 5% to 10% ).

The velocyto pipeline gave me a wierd pseudotime trajectory that is contrary to Prior Knowledge.

So, I wonder if a low unspliced proportion have an impact on scvelo analysis. Thank you very much.

Rohit-Satyam commented 1 year ago

Hi. Did you observe impact of low unspliced reads?