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I have a 10x visium dataset within my seu object and I want to run Seurat::FindSpatiallyVariableFeatures on this data. It seems that this function first requires the data to be normalised with Seurat::SCTransform prior to calculation. Not doing so results in this error message:
Error in `object[[assay]]`:
! ‘SCT’ not found in this Seurat object
Is it possible to run FindSpatiallyVariableFeatures on data that is not normalised? Or on data that is normalised with an alternative normalisation method such as Seurat::NormalizeData for example?
The text was updated successfully, but these errors were encountered:
I have a 10x visium dataset within my
seuobject and I want to runSeurat::FindSpatiallyVariableFeatureson this data. It seems that this function first requires the data to be normalised withSeurat::SCTransformprior to calculation. Not doing so results in this error message:Is it possible to run
FindSpatiallyVariableFeatureson data that is not normalised? Or on data that is normalised with an alternative normalisation method such asSeurat::NormalizeDatafor example?The text was updated successfully, but these errors were encountered: