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Center-for-Spatial-OMICs / SpatialQC

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readSpatial CosMx error in CreateDimReducObject #1

Closed dpcook closed 4 months ago

dpcook commented 4 months ago

Hi there! Just came across a small error readSpatial for CosMx

coords <- as.matrix(coords[, 1:2])
    colnames(coords) <- c("Tissue_1", "Tissue_2")
    rownames(coords) <- colnames(seu_obj)
seu_obj[["tissue"]] <- CreateDimReducObject(m, key = "Tissue_", 
                                                assay = "RNA")

Note the use of m instead of coords

ximbao commented 4 months ago

Thanks @dpcook! Should be fixed: bae6a47