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Repository macs2
Name: macs2
Owner: iuc
Synopsis: MACS - Model-based Analysis of ChIP-Seq
With the improvement of sequencing techniques, chromatin immunoprecipitation
followed by high throughput sequencing (ChIP-Seq) is getting popular to study genome-wide
protein-DNA interactions. To address the lack of powerful ChIP-Seq analysis method,
we present a novel algorithm, named Model-based Analysis of ChIP-Seq (MACS), for
identifying transcript factor binding sites. MACS captures the influence of genome
complexity to evaluate the significance of enriched ChIP regions, and MACS improves
the spatial resolution of binding sites through combining the information of both
sequencing tag position and orientation. MACS can be easily used for ChIP-Seq data
alone, or with control sample with the increase of specificity.
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Contents of this repository

Name Description Version Minimum Galaxy Version
Call broad peaks from bedGraph output any
Predict 'd' or fragment size from alignment results any
Randomly sample number or percentage of total reads any
Differential peak detection based on paired four bedgraph files any
Remove duplicate reads at the same position any
Refine peak summits and give scores measuring balance of forward- backward tags (Experimental) any
Call peaks from alignment results any
Deduct noise by comparing two signal tracks in bedGraph any
Call peaks from bedGraph output any

Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
Statistics - Tools for generating statistics