Package: speedytax 1.0.4.9000

speedytax: Rapidly Import Classifier Results into 'phyloseq'

Import classification results from the 'RDP Classifier' (Ribosomal Database Project),' 'USEARCH sintax,' 'vsearch sintax' and the 'QIIME2' (Quantitative Insights into Microbial Ecology) classifiers into 'phyloseq' tax_table objects.

Authors:John Quensen [aut, cre, cph]

# Install 'speedytax' in R:

install.packages('speedytax', repos = c('https://jfq3.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jfq3/speedytax/issues

Uses libs:

c++– GNU Standard C++ Library v3

On CRAN:

cpp

2.70 score 7 scripts 167 downloads 5 exports 64 dependencies

Last updated from:dc3168e775. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	199
linux-devel-x86_64	OK	224
source / vignettes	OK	221
linux-release-arm64	OK	200
linux-release-x86_64	OK	228
macos-release-arm64	OK	215
macos-release-x86_64	OK	270
macos-oldrel-arm64	OK	149
macos-oldrel-x86_64	OK	362
windows-devel	OK	225
windows-release	OK	179
windows-oldrel	OK	203
wasm-release	OK	127

Exports:import_qiime2_tax_table import_rdp_tax_table import_sintax_tax_table read_tax_example simple_cap

Dependencies:ade4 ape Biobase BiocGenerics biomformat Biostrings cli cluster codetools cpp11 crayon data.table digest dplyr farver foreach generics ggplot2 glue gtable igraph IRanges isoband iterators jsonlite labeling lattice lifecycle magrittr MASS Matrix mgcv multtest nlme permute phyloseq pillar pixmap pkgconfig plyr purrr R6 RColorBrewer Rcpp RcppArmadillo reshape2 rlang S4Vectors S7 scales Seqinfo sp stringi stringr survival tibble tidyr tidyselect utf8 vctrs vegan viridisLite withr XVector

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Import QIIME2 Classification Table	import_qiime2_tax_table
Import RDP Classifier Taxonomy Table	import_rdp_tax_table
Import SINTAX Taxonomy Table	import_sintax_tax_table
Get path to example taxonomy files	read_tax_example
Simple Capitalization	simple_cap