Select hits from synthetic lethal RNAi screen data. For example, there are two identical celllines except one gene is knocked-down in one cellline. The interest is to find genes that lead to stronger lethal effect when they are knocked-down further by siRNA. Quality control and various visualisation tools are implemented. Four different algorithms could be used to pick up the interesting hits. This package is designed based on 384 wells plates, but may apply to other platforms with proper configuration.
|Author||Chunxuan Shao <firstname.lastname@example.org>|
|Date of publication||None|
|Maintainer||Chunxuan Shao <email@example.com>|
bScore: Calculate B-score
exampleDat: Synthetic lethal RNAi screen example data.
madSelect: Select hits basing on median +- k*MAD
plateHeatmap: Heatmap of all plates
rankProdHits: Select hits by the rank product method
rsaHits: Select hits by RSA
scatterPlot: Scatter plot of RNAi screen results
siRNAPlot: Plot siRNA data and quality metrics.
tTest: student's t-test basing on B-score
zFactor: Calcualte the Z and Z' factor