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yerkes-gencore / gencoreBulk

An R package to facilitate bulk RNAseq analyses at the ENPRC Genomics Core
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Generalize dotplot, remove RENV, add model-fit visualization #20

Closed derrik-gratz closed 8 months ago

derrik-gratz commented 8 months ago

Removed renv stuff that was just from me developing this

Generalized the expression plot to allow different types of inputs, preparring for limma method.

plotModelCoeffs has a daunting list of arguments, but it is working for me with limma model fits to visualize a result. If you can, give it a try. The result looks like this

image
derrik-gratz commented 8 months ago

@micahpf if you get a chance to test plotModelCoeffs let me know what you think. The example should slot right into your data, provided the model coefficients are saved out per these updates

https://github.com/yerkes-gencore/gencoreBulk/commit/ca6bf396f9441573e8fdc53f820303038d5bdd5b https://github.com/yerkes-gencore/bulk_template/pull/4/commits/20d0079b51ea9616bfc672251b3c53b4a89290b4