https://github.com/databio/epihet
Calculating epigenetic heterogeneity
Science Score: 23.0%
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Repository
Calculating epigenetic heterogeneity
Statistics
- Stars: 1
- Watchers: 17
- Forks: 1
- Open Issues: 1
- Releases: 0
Metadata Files
README.md
Epihet: Epigenetic heterogeneity from DNA methylation
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 for details.
Owner
- Name: Databio
- Login: databio
- Kind: organization
- Location: University of Virginia
- Website: https://databio.org
- Repositories: 88
- Profile: https://github.com/databio
Solving problems in computational biology
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Dependencies
- R >= 2.10 depends
- simpleCache * enhances
- MIRA * imports
- binom * imports
- data.table * imports
- BiocStyle * suggests
- bsseq * suggests
- bsseqData * suggests
- devtools * suggests
- knitr * suggests
- rmarkdown * suggests
- testthat * suggests