Package: difconet 1.0-4
difconet: Differential Coexpressed Networks
Estimation of DIFferential COexpressed NETworks using diverse and user metrics. This package is basically used for three functions related to the estimation of differential coexpression. First, to estimate differential coexpression where the coexpression is estimated, by default, by Spearman correlation. For this, a metric to compare two correlation distributions is needed. The package includes 6 metrics. Some of them needs a threshold. A new metric can also be specified as a user function with specific parameters (see difconet.run). The significance is be estimated by permutations. Second, to generate datasets with controlled differential correlation data. This is done by either adding noise, or adding specific correlation structure. Third, to show the results of differential correlation analyses. Please see <http://bioinformatica.mty.itesm.mx/difconet> for further information.
Authors:
difconet_1.0-4.tar.gz
difconet_1.0-4.zip(r-4.5)difconet_1.0-4.zip(r-4.4)difconet_1.0-4.zip(r-4.3)
difconet_1.0-4.tgz(r-4.4-any)difconet_1.0-4.tgz(r-4.3-any)
difconet_1.0-4.tar.gz(r-4.5-noble)difconet_1.0-4.tar.gz(r-4.4-noble)
difconet_1.0-4.tgz(r-4.4-emscripten)difconet_1.0-4.tgz(r-4.3-emscripten)
difconet.pdf |difconet.html✨
difconet/json (API)
| # Install 'difconet' in R: |
| install.packages('difconet', repos = c('https://vtrevino.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 7 years agofrom:a193181ae1. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 27 2024 |
| R-4.5-win | OK | Oct 27 2024 |
| R-4.5-linux | OK | Oct 27 2024 |
| R-4.4-win | OK | Oct 27 2024 |
| R-4.4-mac | OK | Oct 27 2024 |
| R-4.3-win | OK | Oct 27 2024 |
| R-4.3-mac | OK | Oct 27 2024 |
Exports:difconet.build.controlled.datasetdifconet.noise.inspectiondifconet.plot.gene.correlationsdifconet.plot.histograms.heatmap2difconet.run
Dependencies:bitopscaToolsclidata.tablegluegplotsgtoolsKernSmoothlifecyclemagrittrmvtnormrlangstringistringrvctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| GENERATES A DATASET CONTROLLING FOR NOISE AND GENES CONNECTED IN NETWORKS | difconet.build.controlled.dataset |
| PLOT ESTIMATED CORRELATION DISTRIBUTION AFTER ADDING NOISE | difconet.noise.inspection |
| PLOTS THE CORRELATIONS OF A SPECIFIC GENE | difconet.plot.gene.correlations |
| PLOT A HEATMAP REPRESENTATION OF THE DISTRIBUTION OF CORRELATIONS OF MANY GENES | difconet.plot.histograms.heatmap2 |
| RUNS A DIFCONET ANALYSIS | difconet difconet.run |
