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Package: easy16S 26.07

Cédric Midoux

easy16S: a user-friendly Shiny web-service for exploration and visualization of microbiome

This shiny application provides users with an interactive and easy-to-use microbiome analysis framework.

Authors:Cédric Midoux [cre, aut], Mahendra Mariadassou [ctb]

easy16S_26.07.tar.gz
easy16S_26.07.zip(r-4.7)easy16S_26.07.zip(r-4.6)easy16S_26.07.zip(r-4.5)
easy16S_26.07.tgz(r-4.6-any)easy16S_26.07.tgz(r-4.5-any)
easy16S_26.07.tar.gz(r-4.7-any)easy16S_26.07.tar.gz(r-4.6-any)
easy16S_26.07.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
easy16S/json (API)

# Install 'easy16S' in R:

install.packages('easy16S', repos = c('https://inrae.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://forge.inrae.fr/migale/easy16s

Pkgdown/docs site:https://easy16s.migale.inrae.fr

On CRAN:

3.30 score 1 exports 204 dependencies

Last updated from:775ecf91bd. Checks:7 WARNING, 2 OK. Indexed: no.

Target	Result	Time	Files	Syslog
linux-devel-x86_64	WARNING	384
source / vignettes	OK	449
linux-release-x86_64	WARNING	370
macos-release-arm64	WARNING	300
macos-oldrel-arm64	WARNING	347
windows-devel	WARNING	340
windows-release	WARNING	314
windows-oldrel	WARNING	423
wasm-release	OK	246

Exports:run_app

Dependencies:abind ade4 ape askpass assertthat attempt backports base64enc BH Biobase BiocGenerics BiocParallel biomformat Biostrings bit bit64 boot brio broom bslib bsplus cachem car carData cellranger class classInt cli clipr cluster codetools colorspace commonmark config corrplot cowplot cpp11 crayon crosstalk curl data.table datamods DelayedArray Deriv desc DESeq2 digest doBy downlit dplyr DT e1071 esquisse evaluate fansi farver fastmap fontawesome forcats foreach forecast foreign formatR Formula fracdiff fs futile.logger futile.options generics GenomicRanges ggfortify ggplot2 glue golem gridExtra gtable haven highr hms htmltools htmlwidgets httpuv httr igraph IRanges isoband iterators jquerylib jsonlite KernSmooth knitr labeling lambda.r later lattice lazyeval lifecycle lme4 lmtest locfit lubridate magrittr MASS Matrix MatrixGenerics MatrixModels matrixStats memoise mgcv mime minqa modelr multtest nlme nloptr nnet numDeriv openssl otel pbkrtest permute phosphoricons phyloseq phyloseq.extended pillar pixmap pkgconfig plotly plyr prettyunits progress promises proxy purrr quantreg R.methodsS3 R.oo R.utils R6 rappdirs rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reactable reactR readr readxl reformulas rematch reshape2 rio rlang rmarkdown rstatix rstudioapi S4Arrays S4Vectors S7 sass scales Seqinfo shiny shinyAce shinybusy shinycssloaders shinydashboard shinytoastr shinyWidgets snow sourcetools sp SparseArray SparseM spsComps stringi stringr SummarizedExperiment survival sys tibble tidyr tidyselect timechange timeDate tinytex toastui tzdb urca utf8 vctrs vegan viridisLite vroom withr writexl xfun xtable XVector yaml zip zoo

Usage | Load data | Preprocess data | A few words about rarefaction | Explore and Analyse Data | Tables | Metadata | Barplot | Rarefaction | Heatmap | $\alpha$-Diversity | Table | Plot | ANOVA | $\beta$-diversity | Samples heatmap | Samples clustering | MultiDimensional Scaling | Multivariate ANOVA | PCA | Differential abundance | Export data, plot, and results

Rendered fromeasy16S.Rmdusingknitr::rmarkdown

Last update: 2024-07-09
Started: 2024-02-20

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Run the Shiny Application	run_app

Usage by other packages (reverse dependencies)