Imports: XML, RCurl, methods, utils, httr

Depends: R (>= 4.0.0)
Imports: Rcpp (>= 1.0.0), stats, parallel, graphics, utils, grDevices,
MASS, runjags, rjags, coda, hypergeo, logspline
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, rmarkdown, testthat, R.rsp

Depends: R (>= 3.0.2), base, stats, utils, Rcpp (>= 0.10.6)
Imports: abind, plyr, ggplot2, lmtest, lmodel2, np, boot
LinkingTo: Rcpp, RcppArmadillo (>= 0.4.000.2)
Suggests: testthat (>= 2.99.0.9000)

Suggests: adaptiveGPCA (>= 0.1), knitr (>= 1.16), testthat (>= 2.0.0),
markdown, rmarkdown

Depends: R (>= 2.10), ape
Imports: lazyeval, geiger, utils, data.table
Suggests: covr, knitr, rmarkdown, testthat, utf8

Depends: graphics, grDevices, stats, utils, lubridate, ggplot2

Imports: adjclust, BiocGenerics, csaw, data.table, dplyr,
InteractionSet, limma, methods, stats, SummarizedExperiment,
reshape2, testthat, rlang, HiCDOC, purrr

Imports: fitdistrplus, igraph, nFactors, Rcpp (>= 1.0.2), RColorBrewer,
Rdpack

Depends: R (>= 4.0), stats,
Imports: ape (>= 5.0), cli (>= 3.0), colorspace, Rdpack (>= 0.7),
shiny, shinyjs, TreeTools (>= 1.16),
LinkingTo: Rcpp, TreeTools (>= 1.16.1),
Suggests: bookdown, cluster, ggplot2, hypervolume, kdensity, knitr,
MASS, parallel, phangorn (>= 2.2.1), plotly, PlotTools,
protoclust, Quartet, readxl, rmarkdown, Rcpp (>= 1.0.8), rgl,
Rogue, spelling, testthat (>= 3.0), Ternary (>= 1.1.2),
TreeDistData (> 0.1.0), TreeSearch (>= 1.4.0), Umatrix, uwot,
vdiffr (>= 1.0.0),

Imports: ggplot2, igraph, patchwork, pracma
Suggests: Seurat, gridExtra, knitr, plotly, qpdf, rmarkdown, testthat

Depends: R (>= 3.5.0)
Imports: ggparty, ggplot2, partykit, dplyr, ggnewscale, gtable, stats,
tidyr, cluster, grid, yardstick, seriation
Suggests: forcats, knitr, rmarkdown, rpart, testthat

Imports: colorspace, data.table (>= 1.8.8), ggplot2, grid, gridBase,
igraph, methods, RColorBrewer, shiny (>= 0.12.0)

Suggests: knitr, rmarkdown, testthat, vdiffr, spelling, fontquiver,
showtext, sysfonts

Depends: R (>= 4.1.0)
Imports: data.table, future, future.apply, cli (>= 3.6.1)
Suggests: testthat (>= 3.0.0), tidyr (>= 1.3.0), comorbidity (>=
1.0.7), knitr, rmarkdown