DOI: 10.18129/B9.bioc.perturbatr    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see perturbatr.

Statistical Analysis of High-Throughput Genetic Perturbation Screens

Bioconductor version: 3.10

perturbatr does stage-wise analysis of large-scale genetic perturbation screens for integrated data sets consisting of multiple screens. For multiple integrated perturbation screens a hierarchical model that considers the variance between different biological conditions is fitted. The resulting list of gene effects is then further extended using a network propagation algorithm to correct for false negatives.

Author: Simon Dirmeier [aut, cre]

Maintainer: Simon Dirmeier <simon.dirmeier at>

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biocViews CellBasedAssays, ImmunoOncology, Network, Regression, Software
Version 1.6.0
In Bioconductor since BioC 3.7 (R-3.5) (2 years)
License GPL-3
Depends R (>= 3.5), methods, stats
Imports dplyr, ggplot2, tidyr, assertthat, lme4, splines, igraph, foreach, parallel, doParallel, diffusr, lazyeval, tibble, grid, utils, graphics, scales, magrittr,, rlang
Suggests testthat, lintr, knitr, rmarkdown, BiocStyle
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