solvi808

Update image.R to enable control of image file size

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Added the parameters absolute_height and dpi to ggplot_image() in order to enable precise control of the saved image quality and absolute size, passed to ggsave() # Summary Following my discussion...

Another error with addIterativeLSI - "Error in clusterDF$clusters : $ operator is invalid for atomic vectors"

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This seems to be a new bug because I did not get this before, I am suspecting it might have something to do with the new Seurat version as Seurat...

Seurat FindClusters() Error when running addDoubletScores() and addIterativeLSI() ----> no slot of name "i" for this object of class "Graph"

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I am getting this error when running addDoubletScores() as well as addIterativeLSI() `no slot of name "i" for this object of class "Graph" ` And it seems to originate in...

**Describe the bug** I am running the standard vignette provided in the SCENIC plus tutorial, in jupyter notebook When I am running plot_topic I get the error `ValueError: Unable to...

Plots showing projection of perturbation effect in embedding look the same for all regulons

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**Describe the bug** This is not a hard error, but it's an issue with the output of the analysis. - For all the regulon markers including markers that should act...

This is an issue with the output of perturbation analysis, but not a hard error. - I ran the exact same code on all three samples, however one the sample...

Has anybody done batch correction in relation to ChromVAR analysis ? I have an integrated dataset with samples of differing sequencing depth, etc. And I am seeing per sample enrichment...