filter grid

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.

Value

a data.frame containing barcodes, x and y coordinates.

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.