SimFFPE

DOI: 10.18129/B9.bioc.SimFFPE    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see SimFFPE.

NGS Read Simulator for FFPE Tissue

Bioconductor version: 3.11

This package simulates artifact chimeric reads specifically generated in next-generation sequencing (NGS) process of formalin-fixed paraffin-embedded (FFPE) tissue.

Author: Lanying Wei

Maintainer: Lanying Wei <lanying.wei at uni-muenster.de>

Installation

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

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

BiocManager::install("SimFFPE")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SimFFPE")

 

PDF	R Script	An introduction to SimFFPE
PDF		Reference Manual
Text		NEWS

Details

biocViews	Alignment, DataImport, MultipleComparison, SequenceMatching, Sequencing, Software
Version	1.0.0
In Bioconductor since	BioC 3.11 (R-4.0) (0.5 years)
License	LGPL-3
Depends	Biostrings
Imports	dplyr, foreach, doParallel, truncnorm, GenomicRanges, IRanges, Rsamtools, parallel, graphics, stats, utils, methods
LinkingTo
Suggests	BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
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Build Report

Package Archives

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

Source Package	SimFFPE_1.0.0.tar.gz
Windows Binary	SimFFPE_1.0.0.zip
macOS 10.13 (High Sierra)	SimFFPE_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/SimFFPE
Source Repository (Developer Access)	git clone [email protected]:packages/SimFFPE
Package Short Url	https://bioconductor.org/packages/SimFFPE/
Package Downloads Report	Download Stats