calc_low_zero_count_plasmid_gRNAs: calc_low_zero_count_plasmid_gRNAs

In alex-kalinka-cruk/fgcQC: QC metric calculations for CRISPR screen data produced at the FGC

Description

Caclculate the percentage of low (<30) and zero count gRNAs in the plasmid sample - these should be rare.

Usage

calc_low_zero_count_plasmid_gRNAs(counts, plasmid_sample_id)

Arguments

counts	A data frame of counts for each sample in the study (samples as columns, gRNAs as rows).
plasmid_sample_id	A character string naming the plasmid sample ID in the column names of 'counts'. If several plasmid samples are given, the median count will be used.

Value

A data frame containing two colums 'percent_low_count_plasmid_gRNAs' and 'percent_zero_count_plasmid_gRNAs'.

Author(s)

Alex T. Kalinka, [e-mail]

alex-kalinka-cruk/fgcQC documentation built on June 23, 2020, 9:05 p.m.