WGSmapp

DOI: 10.18129/B9.bioc.WGSmapp    

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

Mappability tracks of Whole-genome Sequencing from the ENCODE Project

Bioconductor version: Development (3.12)

This package provides whole-genome mappability tracks on human hg19/hg38 assembly. We employed the 100-mers mappability track from the ENCODE Project and computed weighted average of the mappability scores if multiple ENCODE regions overlap with the same bin. “Blacklist” bins, including segmental duplication regions and gaps in reference assembly from telomere, centromere, and/or heterochromatin regions are included. The dataset consists of three assembled .bam files of single-cell whole genome sequencing from 10X for illustration purposes.

Author: Rujin Wang

Maintainer: Rujin Wang <rujin at email.unc.edu>

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

Installation

To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("WGSmapp")

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

Documentation

PDF   Reference Manual
Text   NEWS

Details

biocViews DNASeqData, ENCODE, ExperimentData, Genome, Homo_sapiens_Data, SequencingData, SingleCellData
Version 1.1.0
License GPL-2
Depends R (>= 3.6.0), GenomicRanges
Imports
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Depends On Me
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Package Archives

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

Source Package WGSmapp_1.1.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/WGSmapp
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/WGSmapp
Package Short Url https://bioconductor.org/packages/WGSmapp/
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