Ensemble Taxonomic Assignments of Amplicon Sequencing Data

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Documentation for package ‘ensembleTax’ version 1.1.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

assign.ensembleTax	Computes ensemble taxonomic assignments for each ASV in an amplicon data set
bayes.sample	Example output of dada2 assignTaxonomy function
bayestax2df	Converts the output of DADA2's assignTaxonomy, which implements a naive bayesian classifier, into a dataframe compatible with the algorithms used in ensembleTax
gg_13_8_train_set_97	All unique taxonomic assignments from the GreenGenes v13.8 clusted at 97%
idtax.pr2.sample	Example output of DECIPHER idtaxa function with pr2 taxonomy
idtax.silva.sample	Example output of DECIPHER idtaxa function with silva taxonomy
idtax2df	Converts outputs of DECIPHER's idtaxa algorithm into a dataframe compatible with the algorithms used in ensembleTax.
pr2v4.12.0	All unique taxonomic assignments from the pr2 reference database v4.12.0
rdp_train_set_16	All unique taxonomic assignments from the RDP Train Set 16
rubric.sample	Example rubric with ASV-identifying data
silva.nr.v138	All unique taxonomic assignments from the Silva SSU nr database v138
sort_my_taxtab	Sorts taxonomy table by ASV-identifying columns.
synonyms_v2	Taxonomic synonyms searched by the taxmapper algorithm
taxmapper	Maps an input taxonomy table onto a different taxonomic nomenclature.