Package: taxonomizr 0.10.6
Scott Sherrill-Mix
taxonomizr: Functions to Work with NCBI Accessions and Taxonomy
Functions for assigning taxonomy to NCBI accession numbers and taxon IDs based on NCBI's accession2taxid and taxdump files. This package allows the user to download NCBI data dumps and create a local database for fast and local taxonomic assignment.
Authors:
taxonomizr_0.10.6.tar.gz
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taxonomizr_0.10.6.tgz(r-4.4-x86_64)taxonomizr_0.10.6.tgz(r-4.4-arm64)taxonomizr_0.10.6.tgz(r-4.3-x86_64)taxonomizr_0.10.6.tgz(r-4.3-arm64)
taxonomizr_0.10.6.tar.gz(r-4.5-noble)taxonomizr_0.10.6.tar.gz(r-4.4-noble)
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taxonomizr.pdf |taxonomizr.html✨
taxonomizr/json (API)
| # Install 'taxonomizr' in R: |
| install.packages('taxonomizr', repos = c('https://sherrillmix.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/sherrillmix/taxonomizr/issues
Last updated 11 months agofrom:5df3783cbb. Checks:OK: 9. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 21 2024 |
| R-4.5-win-x86_64 | OK | Nov 21 2024 |
| R-4.5-linux-x86_64 | OK | Nov 21 2024 |
| R-4.4-win-x86_64 | OK | Nov 21 2024 |
| R-4.4-mac-x86_64 | OK | Nov 21 2024 |
| R-4.4-mac-aarch64 | OK | Nov 21 2024 |
| R-4.3-win-x86_64 | OK | Nov 21 2024 |
| R-4.3-mac-x86_64 | OK | Nov 21 2024 |
| R-4.3-mac-aarch64 | OK | Nov 21 2024 |
Exports:accessionToTaxacondenseTaxagetAccession2taxidgetAccessionsgetCommongetDescendantsgetIdgetId2getNamesAndNodesgetRawTaxonomygetTaxonomygetTaxonomy2lastNotNamakeNewicknormalizeTaxaprepareDatabaseread.accession2taxidread.namesread.names.sqlread.nodesread.nodes.sqlstreamingReadtopoSort
Dependencies:bitbit64blobcachemclicpp11curldata.tableDBIfastmapgluelifecyclememoisepkgconfigplogrR.methodsS3R.ooR.utilsrlangRSQLitevctrs
