Fig. 4

Crispy single sample correction at copy-number segment level. a Crispy pipeline taking as inputs sgRNA CRISPR-Cas9 raw-counts and copy-number segmentation. Gaussian process regression (GPR) is performed at the segment level on per sample basis. The tool outputs corrected fold changes and copy-number ratios and facilitates plotting functions for QC assessment. b Representative example of GPR fit on AU565 cell line. Yellow area represents the standard deviation estimated by the GPR. c Copy-number ratio AURCs obtained by ranking the original uncorrected CRISPR-Cas9 fold changes, x-axis, and the Crispy corrected fold changes, y-axis. d Recall of known essential genes before and after fold change correction. e Comparison between CERES and Crispy copy-number ratio AURCs of corrected fold changes. f Correlation of CERES and Crispy corrected fold changes with original uncorrected fold changes. Scatter plot in c and e represent the median AURCs and error bars the 25th and 75th percentile