Package: KinSwingR 1.25.0
Ashley J. Waardenberg
KinSwingR: KinSwingR: network-based kinase activity prediction
KinSwingR integrates phosphosite data derived from mass-spectrometry data and kinase-substrate predictions to predict kinase activity. Several functions allow the user to build PWM models of kinase-subtrates, statistically infer PWM:substrate matches, and integrate these data to infer kinase activity.
Authors:
KinSwingR_1.25.0.tar.gz
KinSwingR_1.25.0.zip(r-4.5)KinSwingR_1.25.0.zip(r-4.4)KinSwingR_1.25.0.zip(r-4.3)
KinSwingR_1.25.0.tgz(r-4.5-any)KinSwingR_1.25.0.tgz(r-4.4-any)KinSwingR_1.25.0.tgz(r-4.3-any)
KinSwingR_1.25.0.tar.gz(r-4.5-noble)KinSwingR_1.25.0.tar.gz(r-4.4-noble)
KinSwingR_1.25.0.tgz(r-4.4-emscripten)KinSwingR_1.25.0.tgz(r-4.3-emscripten)
KinSwingR.pdf |KinSwingR.html✨
KinSwingR/json (API)
NEWS
| # Install 'KinSwingR' in R: |
| install.packages('KinSwingR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- example_phosphoproteome - Example phosphoproteome.
- phosphositeplus_human - Human kinase-substrates derived from PhosphositePlus.
On BioConductor:KinSwingR-1.25.0(bioc 3.21)KinSwingR-1.24.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
proteomicssequencematchingnetwork
Last updated 4 months agofrom:ccf9fe983f. Checks:8 OK. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Jan 28 2025 |
| R-4.5-win | OK | Jan 28 2025 |
| R-4.5-mac | OK | Jan 28 2025 |
| R-4.5-linux | OK | Jan 28 2025 |
| R-4.4-win | OK | Jan 28 2025 |
| R-4.4-mac | OK | Jan 28 2025 |
| R-4.3-win | OK | Jan 28 2025 |
| R-4.3-mac | OK | Jan 28 2025 |
Exports:buildPWMcleanAnnotationscoreSequencesswingviewPWM
Dependencies:BHBiocParallelbitbit64blobcachemchronclicodetoolscpp11data.tableDBIfastmapformatRfutile.loggerfutile.optionsgluegsubfnlambda.rlifecyclememoisepkgconfigplogrprotorlangRSQLitesnowsqldfvctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Generate Position Weight Matrices (PWMs) | buildPWM |
| Function for extracting peptide sequences from multimapped or complex annotated data | cleanAnnotation |
| Example phosphoproteome. | example_phosphoproteome |
| KinSwingR: A package for predicting kinase activity | KinSwingR-package KinSwingR |
| Human kinase-substrates derived from PhosphositePlus. | phosphositeplus_human |
| Score substrate sequences for matches to kinase Position Weight Matrices (PWMs) | scoreSequences |
| Swing statistic | swing |
| View motif | viewPWM |
