CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing
Fig 6
Comparison of CNVkit and other methods to array CGH.
Log2 ratio estimates by CNVkit, CONTRA and CopywriteR were compared to those by array CGH at each of the targeted genes in the TR and EX cohorts as well as the C0902 cell line sample (CL). The distribution of differences of segmented log2 ratio estimates by each caller from that of array CGH at each targeted gene is shown as a box plot, where each box shows the median and interquartile range of absolute deviations, whiskers show the 95% range, and the magnitide of the 95% range (prediction interval) is printed under the box plot. Columns are CNV callers, and rows are the TR and EX cohorts and C0902 sample on which the callers were evaluated.