Package: infercnv
Type: Package
Title: Infer Copy Number Variation from Single-Cell RNA-Seq Data
Version: 1.29.0
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'
Config/pak/sysreqs: cmake libglpk-dev make jags libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev python3 zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:50:12 UTC
RemoteUrl: https://github.com/bioc/infercnv
RemoteRef: HEAD
RemoteSha: dc5ea12e6906141f94d6e7749d9e58343f364583
Packaged: 2026-07-04 07:21:27 UTC; root
Author: Timothy Tickle [aut],
  Itay Tirosh [aut],
  Christophe Georgescu [aut, cre],
  Maxwell Brown [aut],
  Brian Haas [aut]
Maintainer: Christophe Georgescu <cgeorges@broadinstitute.org>