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ajw2329 / junctionCounts

Utils for identifying pairwise alternative splicing events and quantifying them using junction reads.
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Multi-variate analysis #13

Closed charlesopara closed 3 months ago

charlesopara commented 3 months ago

Is multi-variate analysis enabled with this version of the tool?

ajw2329 commented 3 months ago

Hi Charles -- thanks for your interest in the tool. Currently it doesn't directly support formal multivariate analysis -- we'll look into doing so in the future. In the meantime, you might be able to change some code in DEXSeq_comparison.R (at least line 79) since it is calling DEXseq and it looks like DEXseq itself supports multi-factor analysis. If your analysis doesn't boil down to comparing condition A vs B while blocking on others, though, some more extensive modification might be needed. What do you think @ajritter8 ?

charlesopara commented 3 months ago

That is a great idea! That should work. I'll give it a try and let you know. Thank you so much!