# Statistical Analysis of High-Throughput Genetic Perturbation Screens

## Documentation for package ‘perturbatr’ version 1.2.1

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

perturbatr-package | perturbatr
bootstrap | Create a bootstrap sample from a data-set
dataSet | Getter for a data set
dataSet-method | Getter for a data set
diffuse | Network diffusion
diffuse-method | Network diffusion
filter | Filter the rows of a perturbation data set
geneEffects | Getter for the complete list of genes and their effect sizes
geneEffects-method | Getter for the complete list of genes and their effect sizes
graph | Getter for graph used for network diffusion
graph-method | Getter for graph used for network diffusion
hm | Jointly analyse multiple genetic perturbation screens using a hierarchical model
hm-method | Jointly analyse multiple genetic perturbation screens using a hierarchical model
HMAnalysedPerturbationData-class | Data wrapper for analysed perturbation data using a hierarchical model
inference | Getter for inference used for analysis of perturbation data
inference-method | Getter for inference used for analysis of perturbation data
isBootstrapped | Getter for boolean if boostrapping was used
isBootstrapped-method | Getter for boolean if boostrapping was used
modelFit | Getter for model fit
modelFit-method | Getter for model fit
nestedGeneEffects | Getter for the completed list of nested gene effects
nestedGeneEffects-method | Getter for the completed list of nested gene effects
NetworkAnalysedPerturbationData-class | Data wrapper for analysed perturbation data using network diffusion
params | Getter for parameters used for analysis of perturbation data
params-method | Getter for parameters used for analysis of perturbation data
PerturbationData-class | Data wrapper for a data set of a perturbation screen.
plot.NetworkAnalysedPerturbationData | Plot a 'NetworkAnalysedPerturbationData' object
plot.PerturbationData | Plot perturbation data
rbind.PerturbationData | Bind multiple perturbation data sets together by row
rnaiscreen | A sample pan-pathogenic perturbation dataset
setModelData | Create model data for an hierarchical model
setModelData-method | Create model data for an hierarchical model