Installation and System Requirements | How to cite this package | Classification with RDP | Training a custom RDP classifier | Session Info | Acknowledgments | References
Package: rRDP 2.0.0
rRDP: Interface to the RDP Classifier
This package installs and interfaces the naive Bayesian classifier for 16S rRNA sequences developed by the Ribosomal Database Project (RDP). With this package the classifier trained with the standard training set can be used or a custom classifier can be trained.
Authors:
rRDP_2.0.0.tar.gz
rRDP_2.0.0.zip(r-4.7-any)rRDP_2.0.0.zip(r-4.6-any)rRDP_2.0.0.zip(r-4.5-any)
rRDP_2.0.0.tgz(r-4.6-any)rRDP_2.0.0.tgz(r-4.5-any)
rRDP_2.0.0.tar.gz(r-4.7-any)rRDP_2.0.0.tar.gz(r-4.6-any)
rRDP_2.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
rRDP/json (API)
| # Install 'rRDP' in R: |
| install.packages('rRDP', repos = c('https://mhahsler.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mhahsler/rrdp/issues
Pkgdown/docs site:https://michael.hahsler.net
geneticssequencinginfrastructureclassificationmicrobiomeimmunooncologyalignmentsequencematchingdataimportbayesianbioconductorbioinformaticsopenjdk
Last updated from:502090df1c. Checks:7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | NOTE | 246 | ||
| source / vignettes | OK | 235 | ||
| linux-release | NOTE | 174 | ||
| macos-release | NOTE | 125 | ||
| macos-oldrel | NOTE | 141 | ||
| windows-devel | NOTE | 96 | ||
| windows-release | NOTE | 116 | ||
| windows-oldrel | NOTE | 109 | ||
| wasm-release | OK | 143 |
Exports:accuracyconfusionTabledecode_Greengenesdecode_RDPencode_Greengenesencode_RDPGenClass16SrdpremoveRDPtrainRDP
Dependencies:BiocGenericsBiostringscrayongenericsIRangesrJavaS4VectorsSeqinfoXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Calculate Classification Accuracy | accuracy confusionTable |
| Decoding and Encoding Phylogenetic Classification Annotations | classification decode_Greengenes decode_RDP encode_Greengenes encode_RDP GenClass16S |
| Ribosomal Database Project (RDP) Classifier for 16S rRNA | predict predict.RDPClassifier print.RDPClassifier RDP rdp removeRDP trainRDP |