Bioconductor version: Release (3.14)
CNVfilteR identifies those CNVs that can be discarded by using the single nucleotide variant (SNV) calls that are usually obtained in common NGS pipelines.
Author: Jose Marcos Moreno-Cabrera [aut, cre] , Bernat Gel [aut]
Maintainer: Jose Marcos Moreno-Cabrera <jpuntomarcos at gmail.com>
Citation (from within R,
enter citation("CNVfilteR")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("CNVfilteR")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CNVfilteR")
HTML | R Script | CNVfilteR vignette |
Reference Manual | ||
Text | NEWS |
biocViews | CopyNumberVariation, DNASeq, DataImport, Sequencing, Software, Visualization |
Version | 1.8.0 |
In Bioconductor since | BioC 3.10 (R-3.6) (2.5 years) |
License | Artistic-2.0 |
Depends | R (>= 4.1) |
Imports | IRanges, GenomicRanges, SummarizedExperiment, pracma, regioneR, assertthat, karyoploteR, CopyNumberPlots, graphics, utils, VariantAnnotation, Rsamtools, GenomeInfoDb, Biostrings, methods |
LinkingTo | |
Suggests | knitr, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg19.masked, rmarkdown |
SystemRequirements | |
Enhances | |
URL | https://github.com/jpuntomarcos/CNVfilteR |
BugReports | https://github.com/jpuntomarcos/CNVfilteR/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | CNVfilteR_1.8.0.tar.gz |
Windows Binary | CNVfilteR_1.8.0.zip |
macOS 10.13 (High Sierra) | CNVfilteR_1.8.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/CNVfilteR |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CNVfilteR |
Package Short Url | https://bioconductor.org/packages/CNVfilteR/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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