Package: rRDP 1.37.3

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:Michael Hahsler [aut, cre], Nagar Anurag [aut]

rRDP_1.37.3.tar.gz
rRDP_1.37.3.zip(r-4.7)rRDP_1.37.3.zip(r-4.6)rRDP_1.37.3.zip(r-4.5)
rRDP_1.37.3.tgz(r-4.6-any)rRDP_1.37.3.tgz(r-4.5-any)
rRDP_1.37.3.tar.gz(r-4.7-any)rRDP_1.37.3.tar.gz(r-4.6-any)
rRDP_1.37.3.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

Uses libs:
  • openjdk– OpenJDK Java runtime, using Hotspot JIT

On CRAN:

Conda:

geneticssequencinginfrastructureclassificationmicrobiomeimmunooncologyalignmentsequencematchingdataimportbayesianbioconductorbioinformaticsopenjdk

3.05 score 3 stars 15 scripts 10 exports 9 dependencies

Last updated from:a5215a534e. Checks:6 ERROR, 2 WARNING, 1 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64ERROR134
source / vignettesERROR198
linux-release-x86_64ERROR167
macos-release-arm64ERROR99
macos-oldrel-arm64WARNING148
windows-develERROR124
windows-releaseERROR116
windows-oldrelWARNING176
wasm-releaseOK122

Exports:accuracyconfusionTabledecode_Greengenesdecode_RDPencode_Greengenesencode_RDPGenClass16SrdpremoveRDPtrainRDP

Dependencies:BiocGenericsBiostringscrayongenericsIRangesrJavaS4VectorsSeqinfoXVector

Readme and manuals

Help Manual

Help pageTopics
Calculate Classification Accuracyaccuracy confusionTable
Decoding and Encoding Phylogenetic Classification Annotationsclassification decode_Greengenes decode_RDP encode_Greengenes encode_RDP GenClass16S
Ribosomal Database Project (RDP) Classifier for 16S rRNApredict predict.RDPClassifier print.RDPClassifier RDP rdp removeRDP trainRDP