This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This is the development version of MADSEQ; for the stable release version, see MADSEQ.
Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing DataBioconductor version: Development (3.22)
The MADSEQ package provides a group of hierarchical Bayeisan models for the detection of mosaic aneuploidy, the inference of the type of aneuploidy and also for the quantification of the fraction of aneuploid cells in the sample.
Author: Yu Kong, Adam Auton, John Murray Greally
Maintainer: Yu Kong <yu.kong at phd.einstein.yu.edu>
Citation (from within R, entercitation("MADSEQ")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MADSEQ")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation Details biocViews Bayesian, CopyNumberVariation, Coverage, GenomicVariation, Sequencing, Software, SomaticMutation, VariantDetection Version 1.35.1 In Bioconductor since BioC 3.4 (R-3.3) (8.5 years) License GPL(>=2) Depends R (>= 3.4), rjags (>= 4-6) Imports VGAM, coda, BSgenome, BSgenome.Hsapiens.UCSC.hg19, S4Vectors, methods, preprocessCore, GenomicAlignments, Rsamtools, Biostrings, GenomicRanges, IRanges, VariantAnnotation, SummarizedExperiment, GenomeInfoDb, rtracklayer, graphics, stats, grDevices, utils, zlibbioc, vcfR System Requirements URL https://github.com/ykong2/MADSEQ Bug Reports https://github.com/ykong2/MADSEQ/issues See More Suggests knitr Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package ArchivesFollow Installation instructions to use this package in your R session.
Source Package Windows Binary (x86_64) macOS Binary (x86_64) macOS Binary (arm64) Source Repository git clone https://git.bioconductor.org/packages/MADSEQ Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MADSEQ Package Short Url https://bioconductor.org/packages/MADSEQ/ Package Downloads Report Download StatsRetroSearch is an open source project built by @garambo | Open a GitHub Issue
Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo
HTML:
3.2
| Encoding:
UTF-8
| Version:
0.7.4