infercnv
Infer Copy Number Variation from Single-Cell RNA-Seq Data
Bioconductor version: 3.24 · Package version: 1.29.0
Using single-cell RNA-Seq expression to visualize CNV in cells.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("infercnv")Details
| Maintainer | Christophe Georgescu <cgeorges@broadinstitute.org> |
| Author | Timothy Tickle [aut], Itay Tirosh [aut], Christophe Georgescu [aut, cre], Maxwell Brown [aut], Brian Haas [aut] |
| License | BSD_3_clause + file LICENSE |
| URL | https://github.com/broadinstitute/inferCNV/wiki |
| Bug Reports | https://github.com/broadinstitute/inferCNV/issues |
| System Requirements | JAGS 4.x.y |
| Downloads rank | 2294 |
| Source branch | devel |
| biocViews | Bayesian, CopyNumberVariation, Genetics, GenomicVariation, HiddenMarkovModel, SingleCell, Software, StatisticalMethod, StructuralVariation, Transcriptomics, VariantDetection |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | infercnv_1.29.0.tar.gz |
| macOS binary (arm64) | infercnv_1.29.0.tgz |
| macOS binary (x86_64) | infercnv_1.29.0.tgz |
Dependencies
Depends: R (>= 4.0)
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