HiCDataHumanIMR90
This is the released version of HiCDataHumanIMR90; for the devel version, see HiCDataHumanIMR90.
Human IMR90 Fibroblast HiC data from Dixon et al. 2012
Bioconductor version: Release (3.23)
The HiC data from Human Fibroblast IMR90 cell line (HindIII restriction) was retrieved from the GEO website, accession number GSE35156 (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE35156). The raw reads were processed as explained in Dixon et al. (Nature 2012).
Author: Nicolas Servant
Maintainer: Nicolas Servant <Nicolas.Servant at curie.fr>
citation("HiCDataHumanIMR90")):
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")
BiocManager::install("HiCDataHumanIMR90")
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("HiCDataHumanIMR90")| HiC Data Human Fibroblast Dixon et al. 2012 | R Script | |
| Reference Manual |
Details
| biocViews | ExperimentData, GEO, Genome, Homo_sapiens_Data |
| Version | 1.32.0 |
| License | GPL-3 |
| Depends | R (>= 3.5.0) |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | HiTC, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | HiTC |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HiCDataHumanIMR90_1.32.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/HiCDataHumanIMR90 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HiCDataHumanIMR90 |
| Package Short Url | https://bioconductor.org/packages/HiCDataHumanIMR90/ |
| Package Downloads Report | Download Stats |