Sergio Rutella, MD PhD FRCPath FRSB

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Results 6 comments of Sergio Rutella, MD PhD FRCPath FRSB

Problem with LoadH5Seurat

I am facing the same issue. Can you please advise?

surv.median.line triggers warnings in ggplot2 3.5.0

I am having the same issue; any suggestions please? Thanks in advance.

Error with find_gene_modules. requires numeric/complex matrix/vector arguments

cds = preprocess_cds(cds) followed by find_gene_modules worked for me, thanks.

Problem with LoadH5Seurat

I have also used the following code, which works beautifully. seurat = sceasy::convertFormat("XXX.h5ad", from = "anndata", to = "seurat")

Warning: Layer counts isn't present in the assay object; returning NULL

Ditto!

JoinLayers(): no applicable method for 'JoinLayers' applied to an object of class "c('SCTAssay', 'Assay', 'KeyMixin')" when use SCTintegration object

I set the DefaultAssay to "RNA" before joining layers; this solved the issue, apparently. I hope it helps.