Set motif matrix for given assay
SetMotifData(object, ...)
# S3 method for Motif
SetMotifData(object, slot, new.data, ...)
# S3 method for ChromatinAssay
SetMotifData(object, slot, new.data, ...)
# S3 method for Seurat
SetMotifData(object, assay = NULL, ...)A Seurat object
Arguments passed to other methods
Name of slot to use
motif matrix to add. Should be matrix or sparse matrix class
Name of assay whose data should be set
Returns a Seurat object
motif.obj <- SeuratObject::GetAssayData(
object = atac_small[['peaks']], slot = "motifs"
)
SetMotifData(object = motif.obj, slot = 'data', new.data = matrix(1:2))
#> A Motif object containing 1 motifs in 2 regions
SetMotifData(
object = atac_small[['peaks']], slot = 'data', new.data = matrix(1:2)
)
#> ChromatinAssay data with 323 features for 100 cells
#> Variable features: 323
#> Genome: hg19
#> Annotation present: TRUE
#> Motifs present: TRUE
#> Fragment files: 0
motif.matrix <- GetMotifData(object = atac_small)
SetMotifData(
object = atac_small, assay = 'peaks', slot = 'data', new.data = motif.matrix
)
#> An object of class Seurat
#> 1323 features across 100 samples within 3 assays
#> Active assay: peaks (323 features, 323 variable features)
#> 2 layers present: counts, data
#> 2 other assays present: bins, RNA
#> 2 dimensional reductions calculated: lsi, umap