seurat-wrappers
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satijalab
Community-provided extensions to Seurat
Hi Seurat developers, Thank you for the continuous support and development, you make our analyzes way easier! Following you [vignette on velocity](https://mojaveazure.github.io/seurat-object/reference/RenameCells.html), I would like to save the final velocity...
Dear Seurat team, Thank you for this great software. I used Seurat combined with harmony several times for integrating batched samples and achieved good results. But when I recently integrate...
This PR implements SEraster, specifically functions `rasterizeGeneExpression`, `rasterizeCellType`, and `permutateByRotation`, for Seurat objects. Functions can take either one object or a list of objects, and return in the same format....
I'm trying to run FastMNN on a Seurat object from an existing analysis where I previously used Harmony integration but now I want the expression values to be batch corrected...
When I run this function: merge_all_filtered
I noticed that Alra doesn't use the scaled data for it's imputation. **Is this by design**? I'm not using the default SCTransform function to normalize my data but the 'old'...
Dear Seurat Wrappers teams, Thank you for the effort you are making to keep this package. I am facing the issue when I run the command RunPrestoAll(obj, assay = "RNA")...
I got this error when installing seuratwrappers. Which version of r can install this package?
data_combined %% RunPCA(object = ., features = VariableFeatures(object = .)) %>% #nolint RunFastMNN(object = ., object.list = SplitObject(., split.by = "sampleid")) Computing 2000 integration features Warning: Layer counts isn't present...
I was under the impression that the `group`/`batch` argument should somehow modify the batch correction outcome, but it doesn't. Is that intended? ```r pbmcsca obj obj[["RNA"]]
