DESCRIPTION

Package: infercnv
Type: Package
Title: Infer Copy Number Variation from Single-Cell RNA-Seq Data
Version: 1.23.0
Date: 2023-12-01
Authors@R: c( person("Timothy", "Tickle", email = "ttickle@broadinstitute.org", role = "aut"), person("Itay", "Tirosh", email = "tirosh@broadinstitute.org", role = "aut"), person("Christophe", "Georgescu", email = "cgeorges@broadinstitute.org", role = c("aut", "cre")), person("Maxwell", "Brown", email = "mbrown@broadinstitute.org", role = "aut"), person("Brian", "Haas", email = "bhaas@broadinstitute.org", role = "aut")) 
BugReports: https://github.com/broadinstitute/inferCNV/issues
Description: Using single-cell RNA-Seq expression to visualize CNV in cells.
biocViews: Software, CopyNumberVariation, VariantDetection, StructuralVariation, GenomicVariation, Genetics, Transcriptomics, StatisticalMethod, Bayesian, HiddenMarkovModel, SingleCell
Depends: R(>= 4.0)
License: BSD_3_clause + file LICENSE
LazyData: TRUE
VignetteBuilder: knitr
Suggests: BiocStyle, knitr, rmarkdown, testthat
RoxygenNote: 7.2.3
NeedsCompilation: no
SystemRequirements: JAGS 4.x.y
Imports: graphics, grDevices, RColorBrewer, gplots, futile.logger, stats, utils, methods, ape, phyclust, Matrix, fastcluster, parallelDist, dplyr, HiddenMarkov, ggplot2, edgeR, coin, caTools, digest, RANN, igraph, reshape2, rjags, fitdistrplus, future, foreach, doParallel, Seurat, BiocGenerics, SummarizedExperiment, SingleCellExperiment, tidyr, parallel, coda, gridExtra, argparse
URL: https://github.com/broadinstitute/inferCNV/wiki
Collate: 
    'SplatterScrape.R'
    'data.R'
    'inferCNV.R'
    'inferCNV_BayesNet.R'
    'inferCNV_HMM.R'
    'inferCNV_constants.R'
    'inferCNV_heatmap.R'
    'inferCNV_hidden_spike.R'
    'inferCNV_i3HMM.R'
    'inferCNV_mask_non_DE.R'
    'inferCNV_meanVarSim.R'
    'inferCNV_ops.R'
    'inferCNV_simple_sim.R'
    'inferCNV_tumor_subclusters.R'
    'inferCNV_tumor_subclusters.random_smoothed_trees.R'
    'infercnv_sampling.R'
    'noise_reduction.R'
    'seurat_interaction.R'