filter_grid: filter grid
In patrickCNMartin/Vesalius: Vesalius: Dissecting Tissue Anatomy from Spatial Transcriptomic Data
filter_grid R Documentation
filter grid
Description
filtered stray barcodes/spatial indices.
Usage
filter_grid(coordinates, filter_grid)
Arguments
coordinates
data frame containing barcodes, / y coordinates of
each barcode.
filter_grid
numeric describing size of the grid to use as proporiton
of array size.
Details
we create a grid over the data an check which grid section contain
a number of barcodes lower than a quantile threshold. Those barcodes will
be removed. As it stands, I am not satisfied with this function. I think
it is too restrictive and will most likely not be applicable to highly
standardised assay.
Value
a data.frame containing barcodes, x and y coordinates.
patrickCNMartin/Vesalius documentation built on April 17, 2025, 11:31 p.m.
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| filter_grid | R Documentation |
filter grid
Description
filtered stray barcodes/spatial indices.
Usage
filter_grid(coordinates, filter_grid)
Arguments
coordinates |
data frame containing barcodes, / y coordinates of each barcode. |
filter_grid |
numeric describing size of the grid to use as proporiton of array size. |
Details
we create a grid over the data an check which grid section contain a number of barcodes lower than a quantile threshold. Those barcodes will be removed. As it stands, I am not satisfied with this function. I think it is too restrictive and will most likely not be applicable to highly standardised assay.
Value
a data.frame containing barcodes, x and y coordinates.
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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