Package: orthGS 0.1.8
orthGS: Orthology vs Paralogy Relationships among Glutamine Synthetase from Plants
Tools to analyze and infer orthology and paralogy relationships between glutamine synthetase proteins in seed plants.
Authors:
orthGS_0.1.8.tar.gz
orthGS_0.1.8.zip(r-4.7)orthGS_0.1.8.zip(r-4.6)orthGS_0.1.8.zip(r-4.5)
orthGS_0.1.8.tgz(r-4.6-any)orthGS_0.1.8.tgz(r-4.5-any)
orthGS_0.1.8.tar.gz(r-4.7-any)orthGS_0.1.8.tar.gz(r-4.6-any)
orthGS_0.1.8.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
orthGS/json (API)
NEWS
| # Install 'orthGS' in R: |
| install.packages('orthGS', repos = c('https://ealedo.r-universe.dev', 'https://cloud.r-project.org')) |
- A_selected - Adjacency Matrix for Orthology Graph
- agf - Angiosperms Gymnosperms Ferns
- AngGym - Angiosperms Gymnosperms
- sdf - Seed Plants and Ferns GS
- selected_tr - Ultrametric Rooted Seed Plants Tree
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:df5ff31aa5. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 169 | ||
| source / vignettes | OK | 193 | ||
| linux-release-x86_64 | OK | 169 | ||
| macos-release-arm64 | OK | 180 | ||
| macos-oldrel-arm64 | OK | 190 | ||
| windows-devel | OK | 109 | ||
| windows-release | OK | 115 | ||
| windows-oldrel | OK | 131 | ||
| wasm-release | OK | 125 |
Exports:coltipsgapless_msagetseqGSmadRootmapTreesmltreemsaorthGorthologyorthPspeciesGSsubsetGS
Dependencies:ade4apebio3dbitbit64castorcliclusterGenerationcodacodetoolscombinatcpp11DEoptimdigestdoParallelexpmfastmatchforeachgenericsglueigraphiteratorsjsonlitelatticelifecyclemagrittrmapsMASSMatrixmnormtnaturalsortnlmenumDerivoptimParallelphangornphytoolspixmappkgconfigPlotToolsquadprogrbibutilsRcppRcppArmadilloRcppEigenRdpackrlangRSpectrascatterplot3dsegmentedseqinrspTreeToolsvctrs
Orthology Beyond GS
Rendered fromOrthology-Beyond-GS.Rmdusingknitr::rmarkdownon May 17 2026.Last update: 2025-04-30
Started: 2025-04-30
Performing Sequence Alignment in R
Rendered fromPerforming-Sequence-Alignment-in-R.Rmdusingknitr::rmarkdownon May 17 2026.Last update: 2025-04-30
Started: 2025-04-30
Searching for GS Orthologs
Rendered fromSearching-for-Orthologous.Rmdusingknitr::rmarkdownon May 17 2026.Last update: 2025-04-30
Started: 2025-04-30
Unraveling the Hiden Paralogs
Rendered fromUnraveling-the-Hiden-Paralogs.Rmdusingknitr::rmarkdownon May 17 2026.Last update: 2025-04-30
Started: 2025-04-30
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Adjacency Matrix for Orthology Graph | A_selected |
| Angiosperms Gymnosperms Ferns | agf |
| Angiosperms Gymnosperms | AngGym |
| Colouring Tree Tips | coltips |
| Remove Gaps in a MSA | gapless_msa |
| Get the GS Sequence | getseqGS |
| Find The Root of a Phylogenetic Tree Using MAD Method | madRoot |
| Map Gene Tree into Species Tree | mapTrees |
| Build Up a ML Tree | mltree |
| Multiple Sequence Alignment | msa |
| Infer GS OrthoGroups Within a Set of Species | orthG |
| Infer OrthoGroups Using Tree Reconciliation | orthology |
| Search Orthologous of a Given Protein | orthP |
| Seed Plants and Ferns GS | sdf |
| Ultrametric Rooted Seed Plants Tree | selected_tr |
| Map Species Names | speciesGS |
| GS Proteins Report | subsetGS |
