curatedAdipoChIP

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see curatedAdipoChIP.

A Curated ChIP-Seq Dataset of MDI-induced Differentiated Adipocytes (3T3-L1)

Bioconductor version: 3.16

A curated dataset of publicly available ChIP-sequencing of transcription factors, chromatin remodelers and histone modifications in the 3T3-L1 pre-adipocyte cell line. The package document the data collection, pre-processing and processing of the data. In addition to the documentation, the package contains the scripts that was used to generated the data.

Author: Mahmoud Ahmed [aut, cre]

Maintainer: Mahmoud Ahmed <mahmoud.s.fahmy at students.kasralainy.edu.eg>

Citation (from within R, enter citation("curatedAdipoChIP")):

Installation

To install this package, start R (version "4.2") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("curatedAdipoChIP")

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("curatedAdipoChIP")

Using curatedAdipoChIP HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ChIPSeqData, ExperimentData, ExperimentHub, GEO, SequencingData

Version 1.14.0

License GPL-3

Depends R (>= 3.6), SummarizedExperiment, ExperimentHub

Imports

System Requirements

URL https://github.com/MahShaaban/curatedAdipoChIP

Bug Reports https://github.com/MahShaaban/curatedAdipoChIP/issues

Suggests knitr, rmarkdown, GenomicFeatures, ChIPseeker, AnnotationDbi, S4Vectors, DESeq2, fastqcr, devtools, testthat, readr, dplyr, tidyr, ggplot2

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Package Archives

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

Source Package curatedAdipoChIP_1.14.0.tar.gz

Windows Binary

macOS Binary (x86_64)

macOS Binary (arm64)

Source Repository git clone https://git.bioconductor.org/packages/curatedAdipoChIP

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/curatedAdipoChIP

Package Short Url https://bioconductor.org/packages/curatedAdipoChIP/

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