https://github.com/ltla/fugi
Further utilities for GenomicInteractions
https://github.com/ltla/fugi
Last synced: about 1 year ago
JSON representation
Further utilities for GenomicInteractions
- Host: GitHub
- URL: https://github.com/ltla/fugi
- Owner: LTLA
- Created: 2019-04-20T05:05:24.000Z (about 7 years ago)
- Default Branch: master
- Last Pushed: 2019-06-22T18:45:58.000Z (almost 7 years ago)
- Last Synced: 2025-02-10T12:29:32.734Z (over 1 year ago)
- Language: R
- Size: 4.44 MB
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
- Changelog: NEWS
Awesome Lists containing this project
README
##GenomicInteractions
*GenomicInteractions* is an R/Bioconductor package for manipulating and investigating chromatin interaction data. It provides simple annotation of genomic features which interfaces with existing Bioconductor packages, as well as numerous plotting functions and summary statistics.
###Installation
To install this package, start R and enter:
```
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install("GenomicInteractions")
```
To install the latest version from this repository using the devtools package:
```
library(devtools)
install_github("ComputationalRegulatoryGenomicsICL/GenomicInteractions")
```
###Bioconductor links and documentation
The bioconductor page contains documentation for the released package: [Bioconductior Release 3.0](http://www.bioconductor.org/packages/release/bioc/html/GenomicInteractions.html)
To view example Hi-C and ChIA-PET analysis for using this package on your system, start R and enter:
```
browseVignettes("GenomicInteractions")
```
###Citation
From within R, enter `citation("GenomicInteractions")`:
```
Harmston, N., Ing-Simmons, E., Perry, M., Baresic, A., and Lenhard, B. (2014). GenomicInteractions: R package for handling genomic interaction data. R package version 1.0.0.
```
###Contributing
We welcome contributions in any form: suggestions, issues, bugfixes. Pull requests should be made to the development branch.