hic_example_data: Example HiC dataset
In LTLA/fugi: Further Utilities for Genomic Interactions
Description
Usage
Format
Value
References
Description
This dataset contains HiC data from Seitan et al. (2013).
The data was analysed using HOMER (Heinz et al. 2010) at a resolution of 100kb to find significant interactions.
This example dataset has been filtered to retain only interactions on chromosomes 14 and 15 with a FDR < 0.1.
The data has also been annotated for overlaps with Refseq promoters.
See the HiC analysis vignette (vignette(package="fugi")) for more information on how this dataset was created.
Usage
1
Format
A GenomicInteractions object with length 8171.
Value
A GenomicInteractions object.
References
Seitan VC et al. (2013).
Cohesin-based chromatin interactions enable regulated gene expression within pre-existing architectural compartments.
Genome Res. 23, 2066-77.
Heinz S, Benner C, Spann N, Bertolino E et al. (2010).
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.
Mol. Cell 38(4), 576-589.
LTLA/fugi documentation built on June 22, 2019, 8:50 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Format Value References
Description
This dataset contains HiC data from Seitan et al. (2013).
The data was analysed using HOMER (Heinz et al. 2010) at a resolution of 100kb to find significant interactions.
This example dataset has been filtered to retain only interactions on chromosomes 14 and 15 with a FDR < 0.1.
The data has also been annotated for overlaps with Refseq promoters.
See the HiC analysis vignette (vignette(package="fugi")) for more information on how this dataset was created.
Usage
1 |
Format
A GenomicInteractions object with length 8171.
Value
A GenomicInteractions object.
References
Seitan VC et al. (2013). Cohesin-based chromatin interactions enable regulated gene expression within pre-existing architectural compartments. Genome Res. 23, 2066-77.
Heinz S, Benner C, Spann N, Bertolino E et al. (2010). Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38(4), 576-589.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.