https://github.com/databio/epihet

Calculating epigenetic heterogeneity
https://github.com/databio/epihet

Last synced: 11 months ago
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Calculating epigenetic heterogeneity

• Host: GitHub
• URL: https://github.com/databio/epihet
• Owner: databio
• Created: 2017-03-13T20:57:56.000Z (over 9 years ago)
• Default Branch: master
• Last Pushed: 2019-01-23T16:50:52.000Z (over 7 years ago)
• Last Synced: 2025-03-05T04:44:27.204Z (over 1 year ago)
• Language: R
• Homepage:
• Size: 489 KB
• Stars: 1
• Watchers: 18
• Forks: 1
• Open Issues: 1
• Metadata Files:
  • Readme: README.md
  • Changelog: NEWS

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README

          
# Epihet: Epigenetic heterogeneity from DNA methylation

[![Build Status](https://travis-ci.org/databio/epihet.svg?branch=master)](https://travis-ci.org/databio/epihet)

`Epihet` calculates a the PIM score, which measures the epigenetic heterogeneity in a bisulfite sequencing sample. Under the assumption that a homogeneous sample will have mostly CpGs with either 100% or 0% DNA methylation, it follows that the proportion of sites that differ from these two extremes can be used as a measure of sample heterogeneity.

### Installing

Install the development version of epihet directly from GitHub:

```{r}

devtools::install_github("databio/epihet")

```

or locally after downloading/cloning the source code:

```{r}

install.packages("path/to/epihet/directory", repos=NULL, type="source")

```

### How to use

Please see the [vignettes](/vignettes) for details.