Package: SNFtool 2.3.1
Benjamin Brew
SNFtool: Similarity Network Fusion
Similarity Network Fusion takes multiple views of a network and fuses them together to construct an overall status matrix. The input to our algorithm can be feature vectors, pairwise distances, or pairwise similarities. The learned status matrix can then be used for retrieval, clustering, and classification.
Authors:
SNFtool_2.3.1.tar.gz
SNFtool_2.3.1.tar.gz(r-4.5-noble)SNFtool_2.3.1.tar.gz(r-4.4-noble)
SNFtool_2.3.1.tgz(r-4.4-emscripten)SNFtool_2.3.1.tgz(r-4.3-emscripten)
SNFtool.pdf |SNFtool.html✨
SNFtool/json (API)
| # Install 'SNFtool' in R: |
| install.packages('SNFtool', repos = c('https://cran.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 4 years agofrom:64ade299d2. Checks:3 OK. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 10 2025 |
| R-4.5-linux | OK | Mar 10 2025 |
| R-4.4-linux | OK | Mar 10 2025 |
Exports:affinityMatrixcalNMIchiDist2concordanceNetworkNMIdisplayClustersdisplayClustersWithHeatmapdist2estimateNumberOfClustersGivenGraphgetColorsForGroupsgroupPredictheatmapPlusplotAlluvialrankFeaturesByNMISNFspectralClusteringstandardNormalization
Dependencies:alluvialExPositionprettyGraphs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Affinity matrix calculation | affinityMatrix |
| Mutual Information calculation | calNMI |
| Pairwise Chi-squared distances | chiDist2 |
| Concordance Network NMI calculation | concordanceNetworkNMI |
| Data1 | Data1 |
| Data2 | Data2 |
| dataL | dataL |
| Plot given similarity matrix by clusters | displayClusters |
| Display the similarity matrix by clusters with some sample information | displayClustersWithHeatmap |
| Pairwise squared Euclidean distances | dist2 |
| Estimate Number Of Clusters Given Graph | estimateNumberOfClustersGivenGraph |
| Obtaining a vector of colors from a numeric vector of group | getColorsForGroups |
| Group Predict | groupPredict |
| Display heatmap for clusters | heatmapPlus |
| Labels for dataL dataset | label |
| Plot Alluvial | plotAlluvial |
| Rank Features by NMI | rankFeaturesByNMI |
| Similarity Network Fusion | SNF |
| Spectral Clustering | spectralClustering |
| Standard Normalization | standardNormalization |