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-4.5)rRDP_1.37.3.zip(r-4.4)rRDP_1.37.3.zip(r-4.3)
rRDP_1.37.3.tgz(r-4.4-any)rRDP_1.37.3.tgz(r-4.3-any)
rRDP_1.37.3.tar.gz(r-4.5-noble)rRDP_1.37.3.tar.gz(r-4.4-noble)
rRDP_1.37.3.tgz(r-4.4-emscripten)rRDP_1.37.3.tgz(r-4.3-emscripten)
rRDP.pdf |rRDP.html
rRDP/json (API)
NEWS

# Install rRDP in R:
install.packages('rRDP', repos = c('https://mhahsler.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/mhahsler/rrdp/issues

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

On BioConductor:rRDP-1.39.0(bioc 3.20)rRDP-1.38.0(bioc 3.19)

bioconductor-packagebioconductorbioinformaticsclassification

10 exports 1 stars 1.64 score 19 dependencies

Last updated 2 months agofrom:a5215a534e17afd55e26ea59926afc30e9687800

Exports:accuracyconfusionTabledecode_Greengenesdecode_RDPencode_Greengenesencode_RDPGenClass16SrdpremoveRDPtrainRDP

Dependencies:askpassBiocGenericsBiostringscrayoncurlGenomeInfoDbGenomeInfoDbDatahttrIRangesjsonlitemimeopensslR6rJavaS4VectorssysUCSC.utilsXVectorzlibbioc

rRDP: Interface to the RDP Classifier

Rendered fromrRDP.Rmdusingknitr::rmarkdownon May 29 2024.

Last update: 2024-03-28
Started: 2024-03-26

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