https://github.com/ltla/dacpet

An R package for ChIA-PET data analysis
https://github.com/ltla/dacpet

chia-pet r

Last synced: 18 days ago
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An R package for ChIA-PET data analysis

• Host: GitHub
• URL: https://github.com/ltla/dacpet
• Owner: LTLA
• License: gpl-3.0
• Created: 2014-07-15T07:42:20.000Z (over 10 years ago)
• Default Branch: master
• Last Pushed: 2014-11-18T22:11:46.000Z (about 10 years ago)
• Last Synced: 2024-10-30T19:08:10.864Z (2 months ago)
• Topics: chia-pet, r
• Language: R
• Size: 2.88 MB
• Stars: 0
• Watchers: 3
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
dacpet

======

An R package for ChIA-PET data analysis

This package provides methods for linker splitting, tag pair counting, normalization and detection of specific interactions for ChIA-PET data. It is based primarily on the statistical methods in the edgeR package. Potential users are directed to peruse the user's guide (found in `package/inst/doc`) to implement their own analyses, and to understand some of the theory behind the pipeline.

To install this package, make sure that the latest version of R is installed. Then, at the R prompt, type:

```R

source("http://bioconductor.org/biocLite.R")

useDevel()

biocLite(c('edgeR', 'Rsamtools', 'GenomicRanges', 'rhdf5', 'csaw'))

devtools::install_github("LTLA/dacpet/package")

```