Package: ggrasp 1.2
ggrasp: Gaussian-Based Genome Representative Selector with Prioritization
Given a group of genomes and their relationship with each other, the package clusters the genomes and selects the most representative members of each cluster. Additional data can be provided to the prioritize certain genomes. The results can be printed out as a list or a new phylogeny with graphs of the trees and distance distributions also available. For detailed introduction see: Thomas H Clarke, Lauren M Brinkac, Granger Sutton, and Derrick E Fouts (2018), GGRaSP: a R-package for selecting representative genomes using Gaussian mixture models, Bioinformatics, bty300, <doi:10.1093/bioinformatics/bty300>.
Authors:
ggrasp_1.2.tar.gz
ggrasp_1.2.zip(r-4.5)ggrasp_1.2.zip(r-4.4)ggrasp_1.2.zip(r-4.3)
ggrasp_1.2.tgz(r-4.4-any)ggrasp_1.2.tgz(r-4.3-any)
ggrasp_1.2.tar.gz(r-4.5-noble)ggrasp_1.2.tar.gz(r-4.4-noble)
ggrasp_1.2.tgz(r-4.4-emscripten)ggrasp_1.2.tgz(r-4.3-emscripten)
ggrasp.pdf |ggrasp.html✨
ggrasp/json (API)
NEWS
| # Install 'ggrasp' in R: |
| install.packages('ggrasp', repos = c('https://idpcc.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 3 years agofrom:fcca5a22cb. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 13 2024 |
| R-4.5-win | OK | Nov 13 2024 |
| R-4.5-linux | OK | Nov 13 2024 |
| R-4.4-win | OK | Nov 13 2024 |
| R-4.4-mac | OK | Nov 13 2024 |
| R-4.3-win | OK | Nov 13 2024 |
| R-4.3-mac | OK | Nov 13 2024 |
Exports:ggrasp.addRanksggrasp.clusterggrasp.loadggrasp.reclusterggrasp.write
Dependencies:abindapeaskpassbackportsbase64encbgmmbootbroombslibcachemcarcarDataclicolorspacecombinatcowplotcpp11crosstalkcurldata.tableDerivdigestdoBydplyrevaluatefansifarverfastmapfontawesomeFormulafsgenericsggplot2gluegtablehighrhtmltoolshtmlwidgetshttrisobandjquerylibjsonlitekernlabknitrlabelinglaterlatticelazyevallifecyclelme4magrittrMASSMatrixMatrixModelsmemoisemgcvmicrobenchmarkmimeminqamixtoolsmodelrmunsellmvtnormnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigplotlypromisespurrrquantregR6rappdirsRColorBrewerRcppRcppEigenrlangrmarkdownsassscalessegmentedSparseMstringistringrsurvivalsystibbletidyrtidyselecttinytexutf8vctrsviridisLitewithrxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| An S4 class representing the GGRaSP data and output | ggrasp-class |
| ggrasp.addRanks | ggrasp.addRanks |
| ggrasp.cluster | ggrasp.cluster |
| ggrasp.load | ggrasp.load |
| ggrasp.recluster | ggrasp.recluster |
| ggrasp.write | ggrasp.write |
| plot.ggrasp | plot.ggrasp |
| print.ggrasp | print.ggrasp |
| summary.ggrasp | summary.ggrasp |
