Depends: R (>= 3.5)
Imports: cli (>= 2.0.0), cowplot, data.table, dplyr, furrr (>= 0.2.0),
future, ggplot2 (>= 3.3.0), ggpubr, maftools, magrittr,
methods, NMF, purrr, Rcpp, rlang (>= 0.1.2), stats, tidyr
LinkingTo: Rcpp
Suggests: Biobase, Biostrings, BSgenome, BSgenome.Hsapiens.UCSC.hg19,
circlize, cluster, covr, digest, GenomicRanges, GenSA,
ggalluvial, ggcorrplot, ggfittext, ggplotify, ggrepel, IRanges,
knitr, lpSolve, markdown, matrixStats, nnls, parallel,
patchwork, pheatmap, quadprog, R.utils, RColorBrewer,
reticulate, rmarkdown, roxygen2, scales, synchronicity,
testthat (>= 3.0.0), tibble, UCSCXenaTools

Depends: R (>= 3.2.2)
Suggests: covr, knitr, rmarkdown, ggplot2, testthat

Depends: R(>= 3.4)
Imports: stats, utils, survcomp, survival, GSVA

Depends: R (>= 4.0.0), methods
Imports: GenomeInfoDb (>= 1.29.3), GenomicRanges, IRanges, Matrix,
Rsamtools, S4Vectors, SeuratObject (>= 4.0.0), data.table,
dplyr (>= 1.0.0), future, future.apply, ggplot2, rlang, irlba,
pbapply, tidyr, patchwork, stats, utils, BiocGenerics, stringi,
fastmatch, RcppRoll, scales, Rcpp, grid, tidyselect, vctrs,
lifecycle
LinkingTo: Rcpp
Suggests: Seurat (>= 4.0.6), ggforce, ggrepel, ggseqlogo, testthat (>=
2.1.0), chromVAR, SummarizedExperiment, TFBSTools, motifmatchr,
BSgenome, shiny, miniUI, rtracklayer, biovizBase, Biostrings,
lsa, MASS

Depends: R (>= 3.5.0)
Imports: neuralnet, lme4, methods, Matrix, pbmcapply, Seurat(>= 3.2.0),
RJSONIO, igraph (>= 1.2.1), jsonlite (>= 1.5), RColorBrewer (>=
1.1.2), stats
Suggests: hdf5r, rhdf5, knitr, rmarkdown, formatR

Imports: MASS, graphics, grDevices, stats, utils

Imports: graphics, seqinr, shiny, stats, utils

Imports: stats, utils,graphics,grDevices,dplyr,forestplot, gplots,
gtools, survival,survminer,ggplot2

Suggests: covr, ggplot2, ggraph, knitr, ompr, ompr.roi, rmarkdown, ROI,
ROI.plugin.glpk, testthat (>= 2.1.0)

Imports: scales, rlang (>= 0.4.0)
Suggests: ggplot2, dplyr, ggrepel, testthat (>= 2.1.0), knitr,
rmarkdown, covr

Depends: R (>= 3.3.0)
Imports: MASS, lattice, KernSmooth, cluster, nnet, class, gridGraphics,
biclust, gplots, ComplexHeatmap, fmsb, moments, grDevices,
graphics, stats, utils, mclust, GSVA, circlize
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), RankProd