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>
Citation (from within R, enter
citation("SimFFPE")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("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")| An introduction to SimFFPE | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, DataImport, MultipleComparison, SequenceMatching, Sequencing, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4 years) |
| License | LGPL-3 |
| Depends | Biostrings |
| Imports | dplyr, foreach, doParallel, truncnorm, GenomicRanges, IRanges, Rsamtools, parallel, graphics, stats, utils, methods |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | 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 git@git.bioconductor.org:packages/SimFFPE |
| Bioc Package Browser | https://code.bioconductor.org/browse/SimFFPE/ |
| Package Short Url | https://bioconductor.org/packages/SimFFPE/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.11 | Source Archive |