embed_pcal: embed PCA loading values
In patrickCNMartin/Vesalius: Vesalius: Dissecting Tissue Anatomy from Spatial Transcriptomic Data
embed_pcal R Documentation
embed PCA loading values
Description
embed in grey scale using PCA Loading value
Usage
embed_pcal(counts, dimensions, features = NULL, verbose = TRUE)
Arguments
counts
Seurat object containing normalised counts
dimensions
number dimension to retain from PCA
features
custom vector of features
verbose
logical if progress messages should be outputed
Details
This approach is a slightly different as it takes
the loading value associted to each gene in a barcode and sums
the absolute value of each of those values.
Once all genes in all barcodes have been summed,
we normalise the latent space and return the matrix.
Value
normalised PCA loading matrix
patrickCNMartin/Vesalius documentation built on April 17, 2025, 11:31 p.m.
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| embed_pcal | R Documentation |
embed PCA loading values
Description
embed in grey scale using PCA Loading value
Usage
embed_pcal(counts, dimensions, features = NULL, verbose = TRUE)
Arguments
counts |
Seurat object containing normalised counts |
dimensions |
number dimension to retain from PCA |
features |
custom vector of features |
verbose |
logical if progress messages should be outputed |
Details
This approach is a slightly different as it takes the loading value associted to each gene in a barcode and sums the absolute value of each of those values. Once all genes in all barcodes have been summed, we normalise the latent space and return the matrix.
Value
normalised PCA loading matrix
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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