Package: clstutils 1.55.0
Noah Hoffman
clstutils: Tools for performing taxonomic assignment
Tools for performing taxonomic assignment based on phylogeny using pplacer and clst.
Authors:
clstutils_1.55.0.tar.gz
clstutils_1.55.0.zip(r-4.5)clstutils_1.55.0.zip(r-4.4)clstutils_1.55.0.zip(r-4.3)
clstutils_1.55.0.tgz(r-4.4-any)clstutils_1.55.0.tgz(r-4.3-any)
clstutils_1.55.0.tar.gz(r-4.5-noble)clstutils_1.55.0.tar.gz(r-4.4-noble)
clstutils_1.55.0.tgz(r-4.4-emscripten)clstutils_1.55.0.tgz(r-4.3-emscripten)
clstutils.pdf |clstutils.html✨
clstutils/json (API)
| # Install 'clstutils' in R: |
| install.packages('clstutils', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:clstutils-1.55.0(bioc 3.21)clstutils-1.54.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
sequencingclassificationvisualizationqualitycontrol
Last updated 2 months agofrom:467cc63965. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 29 2024 |
| R-4.5-win | WARNING | Nov 29 2024 |
| R-4.5-linux | WARNING | Nov 29 2024 |
| R-4.4-win | WARNING | Nov 29 2024 |
| R-4.4-mac | WARNING | Nov 29 2024 |
| R-4.3-win | WARNING | Nov 29 2024 |
| R-4.3-mac | WARNING | Nov 29 2024 |
Exports:classifyPlacementsfindOutliersmaxDistsprettyTreerefpkgContentstaxonomyFromRefpkgtreeDists
Dependencies:apebitbit64blobcachemcliclstcpp11DBIdigestevaluatefastmapgluehighrknitrlatticelifecyclememoisenlmepkgconfigplogrRcpprjsonrlangROCRSQLitevctrsxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Sequence based classification and selection of reference sequences. | clstutils-package clstutils |
| Taxonomic classification by phylogenetic placement. | classifyPlacements |
| Identify outlier objects given a square distance matrix. | findOutliers |
| Select a maximally diverse set of items given a distance matrix. | maxDists |
| Draw an annotated phylogenetic tree. | prettyTree |
| Read the contents of a collection of reference sequences ("refpkg"). | refpkgContents |
| Annotation for the Enterococcus sequence data set. | seqdat |
| Enterococcus sequence data set. | seqs |
| Extract taxonomic information from a refpkg. | taxonomyFromRefpkg |
| Provide objects for determining distances among nodes of a reference tree. | treeDists |
