NGScopyData

This is the development version of NGScopyData; for the stable release version, see NGScopyData.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0

Subset of BAM files of human tumor and pooled normal sequencing data (Zhao et al. 2014) for the NGScopy package

Bioconductor version: Development (3.24)

Subset of BAM files of human lung tumor and pooled normal samples by targeted panel sequencing. [Zhao et al 2014. Targeted Sequencing in Non-Small Cell Lung Cancer (NSCLC) Using the University of North Carolina (UNC) Sequencing Assay Captures Most Previously Described Genetic Aberrations in NSCLC. In preparation.] Each sample is a 10 percent random subsample drawn from the original sequencing data. The pooled normal sample has been rescaled accroding to the total number of normal samples in the "pool". Here provided is the subsampled data on chr6 (hg19).

Author: Xiaobei Zhao [aut, cre, cph]

Maintainer: Xiaobei Zhao <xiaobei at binf.ku.dk>

Citation (from within R, enter citation("NGScopyData")):

Xiaobei Zhao. NGScopyData: Subset of BAM files of human tumor and pooled normal sequencing data (Zhao et al. 2014) for the NGScopy package. doi:10.18129/B9.bioc.NGScopyData, R package version 1.33.0, https://bioconductor.org/packages/NGScopyData.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("NGScopyData")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

No vignettes available
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CancerData, ExperimentData, LungCancerData, SequencingData
Version	1.33.0
In Bioconductor since	BioC 3.0 (R-3.1) (12 years)
License	GPL (>=2)
Depends
Imports
System Requirements
URL	http://www.bioconductor.org/packages/release/data/experiment/html/NGScopyData.html

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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	NGScopyData_1.33.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/NGScopyData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/NGScopyData
Package Short Url	https://bioconductor.org/packages/NGScopyData/
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