The Challenge | What is glyanno? | Workflow: M/z -> Composition -> Structure | Enhancing Compositions and Structures | Bidirectional Conversion
Package: glyanno 0.5.0
Bin Fu
glyanno: Hierarchical Glycan Annotation
Hierarchical annotation of glycans based on molecule mass, composition, and structure. Starting from a molecule mass, glyanno calculates possible glycan compositions. Given a glycan composition, glyanno further deduces possible glycan structures. For glycan structures with generic monosaccharides (e.g., "Hex", "HexNAc"), glyanno refines them into specific types (e.g., "Glc", "Gal"). For structures lacking linkage information (e.g., "Gal(??-?)GalNAc(??-"), glyanno infers the most likely linkages (e.g., "Gal(b1-3)GalNAc(a1-").
Authors:
glyanno_0.5.0.tar.gz
glyanno_0.5.0.zip(r-4.7)glyanno_0.5.0.zip(r-4.6)glyanno_0.5.0.zip(r-4.5)
glyanno_0.5.0.tgz(r-4.6-any)glyanno_0.5.0.tgz(r-4.5-any)
glyanno_0.5.0.tar.gz(r-4.7-any)glyanno_0.5.0.tar.gz(r-4.6-any)
glyanno_0.5.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
glyanno/json (API)
| # Install 'glyanno' in R: |
| install.packages('glyanno', repos = c('https://glycoverse.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/glycoverse/glyanno/issues
Pkgdown/docs site:https://glycoverse.github.io
Last updated from:b5308bd8b6 (on v0.5.0). Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 336 | ||
| source / vignettes | OK | 258 | ||
| linux-release-x86_64 | OK | 280 | ||
| macos-release-arm64 | OK | 323 | ||
| macos-oldrel-arm64 | OK | 196 | ||
| windows-devel | OK | 265 | ||
| windows-release | OK | 263 | ||
| windows-oldrel | OK | 253 | ||
| wasm-release | OK | 116 |
Exports:calculate_mzcomp_to_strucenhance_compenhance_strucfill_anomer_posglyanno_mass_dictmz_to_compppmstruc_to_glytoucan
Dependencies:askpassbackportscachemcheckmateclicodetoolscpp11curldigestdplyrfarverfastmapfsfurrrfuturegenericsggplot2ggviewglobalsglueglydbglydrawglyexpglymotifglyparseglyreprgtablehttr2igraphisobandlabelinglatticelifecyclelistenvmagrittrMatrixmemoiseopensslparallellypillarpkgconfigpurrrR6rappdirsRColorBrewerrlangrstackdequerstudioapiS7scalesstringistringrsystibbletidyrtidyselectutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Calculate m/z values of glycans | calculate_mz |
| Convert glycan composition to glycan structure | comp_to_struc |
| Enhance glycan composition | enhance_comp |
| Enhance glycan structure | enhance_struc |
| Fill anomer positions | fill_anomer_pos |
| Default Mass Dictionary for Glycan Residues | glyanno_mass_dict |
| Convert m/z values to glycan composition | mz_to_comp |
| Calculate PPM | ppm |
| Assign GlyTouCan accessions to glycan structures | struc_to_glytoucan |