EaSeq
https://easeq.net/
Methods
linear single view single scale single focus no abstraction no arrangement no interconnection segment sparse type point contiguous typeTool
| Access Format | standalone app |
| Supported Files | bed sambamcram other |
| License | CC BY-NC-SA |
| Tool name | EaSeq |
| Tool Link | https://easeq.net/ |
| Documentation | https://easeq.net/getting-started/ |
Paper
An interactive environment for agile analysis and visualization of ChIP-sequencing data.
Lerdrup M, Johansen JV, Agrawal-Singh S, Hansen K. An interactive environment for agile analysis and visualization of ChIP-sequencing data. Nat Struct Mol Biol. nature.com; 2016;23: 349–357.
Abstract
To empower experimentalists with a means for fast and comprehensive chromatin immunoprecipitation sequencing (ChIP-seq) data analyses, we introduce an integrated computational environment, EaSeq. The software combines the exploratory power of genome browsers with an extensive set of interactive and user-friendly tools for genome-wide abstraction and visualization. It enables experimentalists to easily extract information and generate hypotheses from their own data and public genome-wide datasets. For demonstration purposes, we performed meta-analyses of public Polycomb ChIP-seq data and established a new screening approach to analyze more than 900 datasets from mouse embryonic stem cells for factors potentially associated with Polycomb recruitment. EaSeq, which is freely available and works on a standard personal computer, can substantially increase the throughput of many analysis workflows, facilitate transparency and reproducibility by automatically documenting and organizing analyses, and enable a broader group of scientists to gain insights from ChIP-seq data.