Package: pandaR 1.39.0
Joseph N. Paulson
pandaR: PANDA Algorithm
Runs PANDA, an algorithm for discovering novel network structure by combining information from multiple complementary data sources.
Authors:
pandaR_1.39.0.tar.gz
pandaR_1.39.0.zip(r-4.5)pandaR_1.39.0.zip(r-4.4)pandaR_1.39.0.zip(r-4.3)
pandaR_1.39.0.tgz(r-4.4-any)pandaR_1.39.0.tgz(r-4.3-any)
pandaR_1.39.0.tar.gz(r-4.5-noble)pandaR_1.39.0.tar.gz(r-4.4-noble)
pandaR_1.39.0.tgz(r-4.4-emscripten)pandaR_1.39.0.tgz(r-4.3-emscripten)
pandaR.pdf |pandaR.html✨
pandaR/json (API)
| # Install 'pandaR' in R: |
| install.packages('pandaR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- pandaResult - Analysis result from PANDA algorithm on toy data
- pandaResultPairs - Analysis result from PANDA algorithm on toy data converted into pairs
- pandaToyData - Toy gene expression, motif, and ppi data
On BioConductor:pandaR-1.37.0(bioc 3.20)pandaR-1.36.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
statisticalmethodgraphandnetworkmicroarraygeneregulationnetworkinferencegeneexpressiontranscriptionnetwork
Last updated 23 days agofrom:0d9c9dc81e. Checks:ERROR: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | FAIL | Oct 30 2024 |
| R-4.5-win | WARNING | Oct 30 2024 |
| R-4.5-linux | WARNING | Oct 30 2024 |
| R-4.4-win | WARNING | Oct 30 2024 |
| R-4.4-mac | WARNING | Oct 30 2024 |
| R-4.3-win | WARNING | Oct 30 2024 |
| R-4.3-mac | WARNING | Oct 30 2024 |
Exports:calcDegreecalcDegreeDifferenceimportPandaMatlabmultiplotpandaplotCommunityDetectionplotGraphplotZplotZbyTFsubnetworksummary.pandatargetedGenestestMotiftopedges
Dependencies:BiobaseBiocGenericsclicolorspacecpp11fansifarverggplot2gluegtablehexbinigraphisobandlabelinglatticelifecyclemagrittrMASSMatrixmatrixStatsmgcvmunsellnlmepillarpkgconfigplyrR6RColorBrewerRcppreshaperlangRUnitscalestibbleutf8vctrsviridisLitewithr
An Introduction to the pandaR Package
Rendered frompandaR.Rmdusingknitr::rmarkdownon Oct 30 2024.Last update: 2016-05-01
Started: 2015-04-06
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Calculate regulatory network degree | calcDegree |
| Calculate difference in degrees | calcDegreeDifference |
| Panda Matlab importer | importPandaMatlab |
| Multiple plots | multiplot |
| Passing Messages between Biological Networks to Refine Predicted Interactions | panda |
| pandaR: Passing Messages between Biological Networks to Refine Predicted Interactions. | pandaR-package pandaR |
| Analysis result from PANDA algorithm on toy data | pandaResult |
| Analysis result from PANDA algorithm on toy data converted into pairs | pandaResultPairs |
| Toy gene expression, motif, and ppi data | pandaToyData |
| Community detection plot | plotCommunityDetection |
| Plot graph | plotGraph |
| Comparison of Z scores between two PANDA runs | plotZ |
| Plot Z by TF out-degree quantiles | plotZbyTF |
| print.panda | print.panda |
| Subnetwork | subnetwork |
| Summary.panda | summary.panda |
| targetedGenes | targetedGenes |
| Check motif | testMotif |
| Top edges | topedges |