coRNAi: Analysis of co-knock-down RNAi data

Share:

Analysis of combinatorial cell-based RNAi screens

Author
Elin Axelsson
Date of publication
None
Maintainer
Elin Axelsson <elin.axelsson@imp.ac.at>
License
Artistic-2.0
Version
1.24.0

View on Bioconductor

Man pages

BoxPlotShorth
Boxplot with horizontal bars at the midpoint of the shorth
cellHTS2df
converts cellHTS objects to dataframes
cortestmatrices
Function to extract correlations and corresponding p-values...
data2graph
Function to create .dot files for graph representation of...
df2array
function to do go from data frame to an array with values
df2fitmatrix
matrix for lmFit from dataframe
df2lmFit
lmFit from dataframe
estmodel
Function to do estimate the main effects from data using...
faultyscreen
faulty screen
InteractGraph
functions to visualize interactions as a graph
interactiontable
Returns a list of interactions with associated statistics.
InteractLevelPlot
function to visualize interactions as a levelplot
key
A key to data set screen1, contains (additional) information...
MainFitPlot
Diagnostic plot
PlotHeatmap
Plot a heatmap of interactions
Pplot
Function to plot cumulative p-values
repplots
reproducibility plots
rlmmain
main effect estimation
screen1_raw
screen1 raw data
screen2_raw
screen2 raw data
signalplots
plot variation vs signal intensity
tt2matrix
Extracting data from a toptable and format it to matrix
updateDf
updates dataframe after fitting of main estimates
weightDf
Function to indicate which data points should be involved in...

Files in this package

coRNAi/DESCRIPTION
coRNAi/NAMESPACE
coRNAi/R
coRNAi/R/BetweenScreenPlot.R
coRNAi/R/BoxPlotShorth.R
coRNAi/R/InteractGraph.R
coRNAi/R/InteractLevelPlot.R
coRNAi/R/MAplot.R
coRNAi/R/MainFitPlot.R
coRNAi/R/PlotGraph.R
coRNAi/R/PlotHeatmap.R
coRNAi/R/Pplot.R
coRNAi/R/ROCstat.R
coRNAi/R/SDplot.R
coRNAi/R/WithinScreenPlot.R
coRNAi/R/array2Larray.R
coRNAi/R/cellHTS2df.R
coRNAi/R/corrmatrix.R
coRNAi/R/cortestmatrices.R
coRNAi/R/data2graph.R
coRNAi/R/df2array.R
coRNAi/R/df2fitmatrix.R
coRNAi/R/df2lmFit.R
coRNAi/R/estmodel.R
coRNAi/R/estpart.R
coRNAi/R/extractDiag.R
coRNAi/R/getNodeEdgeInfo.R
coRNAi/R/graphPart.R
coRNAi/R/interactiontable.R
coRNAi/R/lmmain.R
coRNAi/R/lmpart.R
coRNAi/R/main2fit.R
coRNAi/R/moMatrix.R
coRNAi/R/panel.corSper.R
coRNAi/R/panel.line.R
coRNAi/R/panel.smooth.R
coRNAi/R/rlmmain.R
coRNAi/R/rlmpart.R
coRNAi/R/subsetData.R
coRNAi/R/tt2matrix.R
coRNAi/R/updateDf.R
coRNAi/R/weightDf.R
coRNAi/R/writedotfile.R
coRNAi/build
coRNAi/build/vignette.rds
coRNAi/data
coRNAi/data/faultyscreen.rda
coRNAi/data/key.rda
coRNAi/data/screen1_raw.rda
coRNAi/data/screen2_raw.rda
coRNAi/inst
coRNAi/inst/doc
coRNAi/inst/doc/coRNAi.R
coRNAi/inst/doc/coRNAi.Rnw
coRNAi/inst/doc/coRNAi.pdf
coRNAi/man
coRNAi/man/BoxPlotShorth.Rd
coRNAi/man/InteractGraph.Rd
coRNAi/man/InteractLevelPlot.Rd
coRNAi/man/MainFitPlot.Rd
coRNAi/man/PlotHeatmap.Rd
coRNAi/man/Pplot.Rd
coRNAi/man/cellHTS2df.Rd
coRNAi/man/cortestmatrices.Rd
coRNAi/man/data2graph.Rd
coRNAi/man/df2array.Rd
coRNAi/man/df2fitmatrix.Rd
coRNAi/man/df2lmFit.Rd
coRNAi/man/estmodel.Rd
coRNAi/man/faultyscreen.Rd
coRNAi/man/interactiontable.Rd
coRNAi/man/key.Rd
coRNAi/man/repplots.Rd
coRNAi/man/rlmmain.Rd
coRNAi/man/screen1_raw.Rd
coRNAi/man/screen2_raw.Rd
coRNAi/man/signalplots.Rd
coRNAi/man/tt2matrix.Rd
coRNAi/man/updateDf.Rd
coRNAi/man/weightDf.Rd
coRNAi/vignettes
coRNAi/vignettes/Annotationfile.tex
coRNAi/vignettes/coRNAi.Rnw