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

Calculates the ratio of normalized counts for inefficient sgRNA PAM-proximal sequences relative to all guides (taking the median of each).

1	calc_inefficient_gRNA_count_ratios(counts, library)

`counts`	A data frame of normalized counts for each sample in the study (samples as columns, gRNAs as rows).
`library`	A data frame containing the library file in which the first column gives the sgRNA sequence and the second column gives the sgRNA ID.

A data frame containing three columns: 'SampleName', 'norm_counts_GCC_ratio' and 'norm_counts_TT_ratio'.

Graf, R. et al. (2019) sgRNA sequence motifs blocking efficient CRISPR/Cas9-mediated gene editing. Cell Rep 26: 1098-1103.

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

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