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splicebox / MntJULiP

Comprehensive and scalable differential splicing analyses
GNU General Public License v3.0
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Inclusion of covariates/confounders #4

Open epoisel13 opened 1 year ago

epoisel13 commented 1 year ago

Hi, thank you for developing this great tool. I am currently working with human data and there are several covariates that might affect the splicing results, also tissue quality and degradation shows variation between samples. Is it possible to include additional covariates into the splicing analysis other than condition? Thank you for a comment on this!

splicebox commented 1 year ago

Hi epoisel13- Thanks for your inquiry. We have been working on implementing covariates. We tested the code, but are still working on the interface. We can prepare and share a copy of the code with you offline, if you are interested in trying it out, or we can let you know when we release it. Let us know.

epoisel13 commented 1 year ago

Thank you for your reply. I would be very interested in trying out your current implementation.

splicebox commented 1 year ago

Copying Ed Lui, who will prepare and send the code.

This version is beta software. We would appreciate any feedback you might have on format and features.

Best, Liliana

From: epoisel13 @.> Sent: Wednesday, April 19, 2023 8:08 AM To: splicebox/MntJULiP @.> Cc: Liliana Florea @.>; Comment @.> Subject: Re: [splicebox/MntJULiP] Inclusion of covariates/confounders (Issue #4)

Thank you for your reply. I would be very interested in trying your current implementation.

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splicebox commented 1 year ago

Also, do you have an email address where we should send the software? Please email it to florea@jhu.edu .