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jr-leary7 / scLANE

Characterize gene dynamics over trajectories using GLMs, GEEs, & GLMMs.
MIT License
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Comparison of trajectories/DEGs for complex experimental designs #195

Open JonasDBM opened 3 months ago

JonasDBM commented 3 months ago

Hi,

very cool preprint and tool!

I am curious to know if scLANE is capable of handling more complex experimental settings such as multi-condition, multi-timepoints, multi-sample scRNA seq datasets to compare DEGs along trajectories between multiple conditions.

Many thanks for your help!

Best,

Jonas

rhondabacher commented 3 months ago

Hi Jonas,

Thank you for the interest! Yes, scLANE can be used for this type of analysis. @jr-leary7 is out of the office this week, but when he returns he can send additional information and we'd be happy to set up a chat if it would be helpful to discuss further.

Best, Rhonda

JonasDBM commented 3 months ago

Hi Rhonda,

great, many thanks for your response and offer! Looking forward to hear from @jr-leary7 but no rush! :)

Best,

Jonas

jr-leary7 commented 2 months ago

Hi @JonasDBM -- sorry for the late response ! I'd be happy to help you out with running scLANE. I would probably recommend the GLMM mode as a starting point for your use case, but if you can tell me more about your data I can help more !

jr-leary7 commented 1 month ago

hi @JonasDBM - any updates / further questions ?