pandaR: PANDA Algorithm

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Runs PANDA, an algorithm for discovering novel network structure by combining information from multiple complementary data sources.

Author
Dan Schlauch, Joseph N. Paulson, Albert Young, John Quackenbush, Kimberly Glass
Date of publication
None
Maintainer
Joseph N. Paulson <jpaulson@jimmy.harvard.edu>, Dan Schlauch <dschlauch@fas.harvard.edu>
License
GPL-2
Version
1.6.0

View on Bioconductor

Man pages

calcDegree
Calculate regulatory network degree
calcDegreeDifference
Calculate difference in degrees
importPandaMatlab
Panda Matlab importer
multiplot
Multiple plots
panda
Passing Messages between Biological Networks to Refine...
pandaR
pandaR: Passing Messages between Biological Networks to...
pandaResult
Analysis result from PANDA algorithm on toy data
pandaResultPairs
Analysis result from PANDA algorithm on toy data converted...
pandaToyData
Toy gene expression, motif, and ppi data
plotCommunityDetection
Community detection plot
plotGraph
Plot graph
plot.panda
Plot.panda
plotZ
Comparison of Z scores between two PANDA runs
plotZbyTF
Plot Z by TF out-degree quantiles
print.panda
print.panda
subnetwork
Subnetwork
summary.panda
Summary.panda
targetedGenes
targetedGenes
testMotif
Check motif
topedges
Top edges

Files in this package

pandaR/DESCRIPTION
pandaR/NAMESPACE
pandaR/R
pandaR/R/AllClasses.R
pandaR/R/AllGenerics.R
pandaR/R/algorithm_functions.R
pandaR/R/comparison_functions.R
pandaR/R/helper.R
pandaR/R/pandaR.R
pandaR/R/plotting.R
pandaR/data
pandaR/data/datalist
pandaR/data/pandaResult.rda
pandaR/data/pandaResultPairs.rda
pandaR/data/pandaToyData.rda
pandaR/inst
pandaR/inst/CITATION
pandaR/inst/unitTests
pandaR/inst/unitTests/test_panda_r_vs_c.R
pandaR/inst/unitTests/test_plotZ.R
pandaR/inst/unitTests/test_removemissing.R
pandaR/inst/unitTests/test_testMotif.R
pandaR/man
pandaR/man/calcDegree.Rd
pandaR/man/calcDegreeDifference.Rd
pandaR/man/importPandaMatlab.Rd
pandaR/man/multiplot.Rd
pandaR/man/panda.Rd
pandaR/man/pandaR.Rd
pandaR/man/pandaResult.Rd
pandaR/man/pandaResultPairs.Rd
pandaR/man/pandaToyData.Rd
pandaR/man/plot.panda.Rd
pandaR/man/plotCommunityDetection.Rd
pandaR/man/plotGraph.Rd
pandaR/man/plotZ.Rd
pandaR/man/plotZbyTF.Rd
pandaR/man/print.panda.Rd
pandaR/man/subnetwork.Rd
pandaR/man/summary.panda.Rd
pandaR/man/targetedGenes.Rd
pandaR/man/testMotif.Rd
pandaR/man/topedges.Rd
pandaR/vignettes
pandaR/vignettes/pandaR.Rmd