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davidaknowles / leafcutter

Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
http://davidaknowles.github.io/leafcutter/
Apache License 2.0
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Paired design for differential splicing analysis #94

Open gouthamatla opened 5 years ago

gouthamatla commented 5 years ago

Hi All,

I would like to know if we could use the paired samples ( same donor sample in two conditions ) for differential splicing analysis. How can I include the pairing information in group file ?

davidaknowles commented 5 years ago

We don't currently have a good way of doing this. Ideally one would include a random effect but the fitting then becomes challenging (it's a GLMM). We do have some ideas about how to approach this for future versions.

gouthamatla commented 4 years ago

Hi All,

May I know if there is any update on this ?

lucafusarbassini commented 2 years ago

Hi, any news in this regard? Thanks so much for the great package!

lucafusarbassini commented 2 years ago

Hi, bringing this up! Thanks!