Depends: R (>= 4.0.0), Rsamtools, git2r, pafr

Imports: shiny, shinyjs, shinyWidgets, colourpicker, rhandsontable,
metafor, markdown, WriteXLS, readxl, jsonlite, grDevices,
methods, stats

Imports: fs, glue, tools, utils, processx, jsonlite
Suggests: spelling, testthat (>= 3.0.0), curl

Suggests: testthat (>= 3.0.0), covr, withr

Imports: shiny (>= 0.13), htmltools (>= 0.3), utils

Suggests: knitr, testthat, pkgdown, rmarkdown, withr

Suggests: knitr, stringi, testthat, withr, hms, readr

Depends: cmm, Rsolnp, numDeriv, R(>= 2.10.0)

Depends: R (>= 3.5.0), stats, utils, graphics, grDevices,
Imports: ggplot2, stringr, tidyr, shinyWidgets, data.table, readxl,
shiny.i18n (>= 0.2.0), showtextdb, shinyalert, readr, showtext,
shiny (>= 1.5.0), reshape, rlang, dplyr, reshape2
Suggests: testthat, knitr, rmarkdown, tidyverse

Suggests: kableExtra, knitr, reshape2, rmarkdown, testthat

Depends: R (>= 3.1.0)
Imports: MASS, CompQuadForm, quantreg, GUniFrac, PearsonDS, lme4,
Matrix, permute, mixtools, survival, stats
Suggests: knitr, vegan, rmarkdown, magrittr, kableExtra

Imports: stats, utils, ggplot2, pROC, qpdf
Suggests: testthat

Imports: Matrix, stats, Rcpp, CORElearn, RSpectra,
LinkingTo: Rcpp

Depends: stats, R (>= 3.6.0), stats4, lattice, methods
Imports: GPArotation, gridExtra, Matrix (>= 1.5-0), Rcpp, mgcv, vegan,
Deriv, splines, pbapply (>= 1.3-0), dcurver, SimDesign
LinkingTo: Rcpp, RcppArmadillo
Suggests: boot, latticeExtra, directlabels, shiny, knitr, markdown,
Rsolnp, nloptr, sirt, plink, mirtCAT

Imports: lattice, stats, Rcpp, methods, markdown, pbapply, lpSolve

Imports: Rcpp (>= 0.12.17), stats, GPArotation

Depends: R (>= 3.1)
Imports: GPArotation, mirtjml, graphics, stats

Imports: mvtnorm, stats, MASS, norm, methods

Imports: grDevices, graphics, stats, tcltk

Suggests: mixAK (>= 2.6), BRugs (>= 0.8-6)

Imports: stats, Matrix, MASS, ucminf, numDeriv, foreach, mlogit

Depends: R (>= 3.5.0), phyloseq, ggplot2 (>= 3.5.0), dada2, dplyr,
purrr
Imports: ape, lifecycle, rlang, stats
Suggests: adespatial, ANCOMBC, BiocManager, Biostrings, circlize,
ComplexUpset, DECIPHER, DESeq2, devtools, DT, edgeR,
formattable, ggalluvial, ggfittext, gghalves, ggh4x,
ggstatsplot, ggridges, ggVennDiagram, glmulti, gtsummary,
grDevices, grid, gridExtra, here, httr, iNEXT, indicspecies,
jsonlite, knitr, magrittr, methods, mia, mixtools,
multcompView, networkD3, pak, patchwork, permute, phangorn,
phyloseqGraphTest, pbapply, plotly, plyr, reshape2, rmarkdown,
rotl, Rtsne, scales, seqinr, SRS, stringr,
SummarizedExperiment, testthat (>= 3.0.0), tibble, tidyr,
treemapify, vegan, venneuler, vctrs, viridis, withr