file_outlier_detecion: Detects outliers based on sample quality scores

In prybakowska/CytoQP: Cytometry data quality control and cleaninig

Detects outliers based on sample quality scores

Description

Detects outlier files based on sample quality scores, generates plot for outlier and .csv file which indicates which fcs files could be discarded from further analysis.

Usage

file_outlier_detecion(scores, out_dir = NULL, sd)

Arguments

scores	List of scaled scores per acquisition batch or data frame of scaled scores, both generated by scaled_aof_score or aof_scoring function
out_dir	Character, pathway to where the plot and .csv files with quality scores should be saved, default is set to NULL, thus file.path(getwd(), "Quality_Control" will be generated.
sd	How many standard deviation should be use to detect outliers default is set to 3.

Value

Save .RDS and .csv Quality scores for further analysis, and plots and save .png for Quality AOF scores for all files.

prybakowska/CytoQP documentation built on June 28, 2022, 12:36 a.m.