Package: DiffCorr 0.4.5
DiffCorr: Analyzing and Visualizing Differential Correlation Networks in Biological Data
A method for identifying pattern changes between 2 experimental conditions in correlation networks (e.g., gene co-expression networks), which builds on a commonly used association measure, such as Pearson's correlation coefficient. This package includes functions to calculate correlation matrices for high-dimensional dataset and to test differential correlation, which means the changes in the correlation relationship among variables (e.g., genes and metabolites) between 2 experimental conditions.
Authors:
DiffCorr_0.4.5.tar.gz
DiffCorr_0.4.5.zip(r-4.7)DiffCorr_0.4.5.zip(r-4.6)DiffCorr_0.4.5.zip(r-4.5)
DiffCorr_0.4.5.tgz(r-4.6-any)DiffCorr_0.4.5.tgz(r-4.5-any)
DiffCorr_0.4.5.tar.gz(r-4.7-any)DiffCorr_0.4.5.tar.gz(r-4.6-any)
DiffCorr_0.4.5.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
DiffCorr/json (API)
NEWS
| # Install 'DiffCorr' in R: |
| install.packages('DiffCorr', repos = c('https://afukushima.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/afukushima/diffcorr/issues
- AraMetLeaves - A metabolite data set from Arabidopsis leaves by GC-TOF/MS
- AraMetRoots - A metabolite data set from Arabidopsis roots by GC-TOF/MS
- golub.df - A compiled expression data from Golub et al.
Last updated from:ed6c7f6ddd. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 162 | ||
| source / vignettes | OK | 188 | ||
| linux-release-x86_64 | OK | 170 | ||
| macos-release-arm64 | OK | 132 | ||
| macos-oldrel-arm64 | OK | 108 | ||
| windows-devel | OK | 114 | ||
| windows-release | OK | 118 | ||
| windows-oldrel | OK | 156 | ||
| wasm-release | OK | 113 |
Exports:cluster.moleculecomp.2.cc.fdrcompcorrcor.distcor2.testgenerate_gget.eigen.moleculeget.eigen.molecule.graphget.lfdrget.min.maxplotClusterMoleculesplotDiffCorrGroupscalingMethodsuncent.cor2distuncent.cordistwrite.modules
Dependencies:BiobaseBiocGenericsclicpp11fdrtoolgenericsglueigraphlatticelifecyclemagrittrMASSMatrixmulttestpcaMethodspkgconfigRcpprlangsurvivalvctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| A metabolite data set from Arabidopsis leaves by GC-TOF/MS | AraMetLeaves |
| A metabolite data set from Arabidopsis roots by GC-TOF/MS | AraMetRoots |
| Hierarchical clustering of molecules | cluster.molecule |
| Export differential correlations between two conditions | comp.2.cc.fdr |
| Compare two correlation coefficients | compcorr |
| Additional distance functions correlation distance (1-r) | cor.dist |
| Correlation Test | cor2.test |
| Generating graph from data matrix | generate_g |
| Get eigen molecule | get.eigen.molecule |
| Getting graph from eigengene module list | get.eigen.molecule.graph |
| Getting local false discovery rate (lfdr) | get.lfdr |
| Get minimum and maximum | get.min.max |
| A compiled expression data from Golub et al. (1999) | golub.df |
| Plot cluster molecules | plotClusterMolecules |
| Plot DiffCorr group | plotDiffCorrGroup |
| scalingMethods | scalingMethods |
| Additional distance functions correlation distance (uncentered) | uncent.cor2dist |
| Calculating all pairwise distances using correlation distance | uncent.cordist |
| Writing modules into a text file | write.modules |
