This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see samExploreR.
Bioconductor version: Release (3.13)
This R package is designed for subsampling procedure to simulate sequencing experiments with reduced sequencing depth. This package can be used to anlayze data generated from all major sequencing platforms such as Illumina GA, HiSeq, MiSeq, Roche GS-FLX, ABI SOLiD and LifeTech Ion PGM Proton sequencers. It supports multiple operating systems incluidng Linux, Mac OS X, FreeBSD and Solaris. Was developed with usage of Rsubread.
Author: Alexey Stupnikov, Shailesh Tripathi and Frank Emmert-Streib
Maintainer: shailesh tripathi <shailesh.tripathy at gmail.com>
Citation (from within R,
enter citation("samExploreR")
):
To install this package, start R (version "4.1") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("samExploreR")
For older versions of R, please refer to the appropriate Bioconductor release.
Reference Manual |
biocViews | Alignment, ChIPSeq, DNASeq, GeneExpression, GeneRegulation, GeneTarget, GeneticVariability, GenomeAnnotation, ImmunoOncology, Preprocessing, RNASeq, SequenceMatching, Sequencing, Software, WholeGenome |
Version | 1.16.0 |
In Bioconductor since | BioC 3.5 (R-3.4) (4.5 years) |
License | GPL-3 |
Depends | ggplot2, Rsubread, RNAseqData.HNRNPC.bam.chr14, edgeR, R (>= 3.4.0) |
Imports | grDevices, stats, graphics |
LinkingTo | |
Suggests | BiocStyle, RUnit, BiocGenerics, Matrix |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary | |
macOS 10.13 (High Sierra) | |
Source Repository | git clone https://git.bioconductor.org/packages/samExploreR |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/samExploreR |
Package Short Url | https://bioconductor.org/packages/samExploreR/ |
Package Downloads Report | Download Stats |
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