# epistack <!-- badges: start --> [](https://github.com/GenEpi-GenPhySE/epistack/actions) [](https://codecov.io/gh/GenEpi-GenPhySE/epistack) <!-- badges: end --> <img src="vignettes/example_vizbi_bos_epistack2.png" width="450" alt="Example of an epistack output"> The `epistack` package main objective is the visualizations of stacks of genomic tracks (such as, but not restricted to, ChIP-seq, ATAC-seq, DNA methyation or genomic conservation data) centered at genomic regions of interest. `epistack` needs three different inputs: - a genomic score objects, such as ChIP-seq coverage or DNA methylation values, provided as a `GRanges` (easily obtained from `bigwig` or `bam` files) - a list of feature of interest, such as peaks or transcription start sites, provided as a `GRanges` (easily obtained from `gtf` or `bed` files) - a score to sort the features, such as peak height or gene expression value ## Installation To install the package from Bioconductor, use: ```r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("epistack") ``` You can install the GitHub version of epistack from `R` using : ```r remotes::install_github("GenEpi-GenPhySE/epistack") ``` ## Documentation A version of `epistack` vignette can be read [here](https://gdevailly.github.io/using_epistack.html). ## Funding {epistack} recieved financial support from [INRAE](https://www.inrae.fr/en) and from [Agence Nationnale de la Recherche](https://anr.fr/en/) through the funding ANR-19-DATA-0007.