A function to run qc tests on cds objects.
Usage
bb_qc(
cds,
cds_name,
genome = c("human", "mouse", "zfish"),
nmad_mito = 2,
nmad_detected = 2,
max_mito = NULL,
min_log_detected = NULL
)Arguments
- cds
A cell data set object to run qc functions on
- cds_name
The name of the cds
- genome
The species to use for identifying mitochondrial genes. Choose from "human", "mouse", "zfish", "human_mouse" for pdx.
- max_mito
Manual cutoff for mitochondrial percentage. May be more strict, i.e. lower, than the automated cutoff but not less strict, Default: NULL
- min_log_detected
Manual cutoff for log detected features. May be more strict, i.e. higher, than the automated cutoff not not less strict, Default: NULL