After identifying true taxa, reads assigned to those taxa are
extracted and then undergo a series of filters. The cell barcode and UMI are
used to demultiplex the reads and create a barcode x taxa counts matrix. The
full taxonomic classification of all resulting barcodes and the number of
counts assigned to each clade are tabulated.
Usage
taxa_counts(umi_list, samples = NULL)
Value
A polars DataFrame.
Arguments
umi_list
A list of polars DataFrame for UMI
data returned by prep_dataset.
samples
A character of sample identifier for each element in
umi_list.
if (FALSE) {
# `umi_list` should be the output of all samples from `prep_dataset()`, and # filtered by `slsd()` and `blsd()`taxa_counts(umi_list, basename(names(umi_list)))
}