iASeq
This is the development version of iASeq; for the stable release version, see iASeq.
iASeq: integrating multiple sequencing datasets for detecting allele-specific events
Bioconductor version: Development (3.24)
It fits correlation motif model to multiple RNAseq or ChIPseq studies to improve detection of allele-specific events and describe correlation patterns across studies.
Author: Yingying Wei, Hongkai Ji
Maintainer: Yingying Wei <ywei at jhsph.edu>
citation("iASeq")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
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("iASeq")
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("iASeq")| iASeq Vignette | R Script | |
| Reference Manual |
Details
| biocViews | ChIPSeq, ImmunoOncology, RNASeq, SNP, Software |
| Version | 1.57.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) (14.5 years) |
| License | GPL-2 |
| Depends | R (>= 2.14.1) |
| Imports | graphics, grDevices |
| System Requirements | |
| URL |
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| Depends On Me | |
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| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | iASeq_1.57.0.tar.gz |
| Windows Binary (x86_64) | iASeq_1.57.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | iASeq_1.57.0.tgz |
| macOS Binary (sonoma-arm64) | iASeq_1.57.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/iASeq |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/iASeq |
| Bioc Package Browser | https://code.bioconductor.org/browse/iASeq/ |
| Package Short Url | https://bioconductor.org/packages/iASeq/ |
| Package Downloads Report | Download Stats |