Package: MetaDICT 1.2.0

Bo Yuan

MetaDICT: Microbiome data integration method via shared dictionary learning

MetaDICT is a method for the integration of microbiome data. This method is designed to remove batch effects and preserve biological variation while integrating heterogeneous datasets. MetaDICT can better avoid overcorrection when unobserved confounding variables are present.

Authors:Bo Yuan [aut, cre], Shulei Wang [aut]

MetaDICT_1.2.0.tar.gz
MetaDICT_1.2.0.zip(r-4.7)MetaDICT_1.2.0.zip(r-4.6)MetaDICT_1.2.0.zip(r-4.5)
MetaDICT_1.2.0.tgz(r-4.6-any)MetaDICT_1.2.0.tgz(r-4.5-any)
MetaDICT_1.2.0.tar.gz(r-4.7-any)MetaDICT_1.2.0.tar.gz(r-4.6-any)
MetaDICT_1.2.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
MetaDICT/json (API)

# Install 'MetaDICT' in R:

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

Bug tracker:https://github.com/boyuan07/metadict/issues

Datasets:

exampleData - Example microbiome dataset bundle
exampleData_transfer - Example microbiome dataset bundle for transfer learning

On BioConductor:MetaDICT-1.3.0(bioc 3.24)MetaDICT-1.2.0(bioc 3.23)

microbiome batcheffect sequencing clustering software

5.30 score 5 stars 10 scripts 182 downloads 7 exports 91 dependencies

Last updated from:c23a0ae16b (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.

Target	Result	Time
bioc-checks	NOTE	198
linux-devel-x86_64	OK	316
source / vignettes	OK	298
linux-release-x86_64	OK	305
macos-release-arm64	OK	263
macos-oldrel-arm64	OK	318
windows-devel	OK	732
windows-release	OK	771
windows-oldrel	OK	712
wasm-release	OK	156

Exports:community_detection data_check MetaDICT metadict_add_new_data pcoa_plot_continuous pcoa_plot_discrete plot_singular_values

Dependencies:abind ape backports boot broom car carData cli cluster colorspace corrplot cowplot cpp11 Deriv digest doBy dplyr ecodist edgeR farver forecast Formula fracdiff generics ggplot2 ggpubr ggrepel ggsci ggsignif glue gridExtra gtable igraph isoband labeling lattice lifecycle limma lme4 lmtest locfit magrittr MASS Matrix MatrixModels matrixStats mgcv microbenchmark minqa modelr nlme nloptr nnet numDeriv pbkrtest permute pillar pkgconfig polynom purrr quantreg R6 RANN rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reformulas rlang rstatix S7 scales SparseM statmod stringi stringr survival tibble tidyr tidyselect timeDate urca utf8 vctrs vegan viridis viridisLite withr zoo

MetaDICT Tutorial

Bo Yuan

Rendered fromMetaDICT.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-08-13
Started: 2024-10-03

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Taxa/Sample Community detection.	community_detection
Data Check	data_check
Example microbiome dataset bundle	exampleData
Example microbiome dataset bundle for transfer learning	exampleData_transfer
Microbiome data integration method via shared dictionary learning.	MetaDICT
Batch correction for new datasets using existing dictionary.	metadict_add_new_data
PCoA plots for continuous variables.	pcoa_plot_continuous
PCoA plots for discrete variables.	pcoa_plot_discrete
Generate Singular Value Plots for Each Dataset.	plot_singular_values