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Project Purpose

• ChIP-seq experiment has been a mature and wide-spread technique for detecting the TF, histone modification and chromatin factors distribution from the genome scale.
• Along with the popularity of the technique and the increasingly huge number of highthroughput datasets, it may be confusing for biologists to get a quick and easy access to understand their biological meaning, and the same important thing is the unbiased judgement of the data quality.So, it’s necessary for us to establish a universal and user-friendly ChIP-seq data analysis pipeline for biologists.
• For bioinformaticians, this is the most extensible and flexible ChIP-seq implemented with python so far. It support various genomic data format and integrate high-rated analysis toolbox.

Project Goal

There are two main command for the pipeline. The one merge_DC is for previous reservation version for constructing Cistrome Secondary Database; The New Version ChiLin provide a more flexible handle for understanding the ChIP-seq analysis workflow.

There are two layers for pipeline goal.This is part of the Cistrome project

1.command line

The goal is to simply input the sequence data files up to input format
support and fill in the customized table of experiment descriptions,
output the desired format of DC and QC report

2.web server

The ChIP-seq pipeline could be incorporated into the Cistrome