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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.

https://github.com/taoliu/MACS/
Content homepage: https://github.com/taoliu/MACS
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/macs2
Type: unrestricted
Revision: 16:495a4173006f
This revision can be installed: True
Times cloned / installed: 1840

Contents of this repository

Name Description Version Minimum Galaxy Version
Call broad peaks from bedGraph output 2.1.1.20160309.0 16.01
Predict 'd' or fragment size from alignment results 2.1.1.20160309.0 16.01
Randomly sample number or percentage of total reads 2.1.1.20160309.0 16.01
Differential peak detection based on paired four bedgraph files 2.1.1.20160309.1 17.09
Remove duplicate reads at the same position 2.1.1.20160309.0 16.01
Refine peak summits and give scores measuring balance of forward- backward tags (Experimental) 2.1.1.20160309.0 16.01
Call peaks from alignment results 2.1.1.20160309.5 17.09
Deduct noise by comparing two signal tracks in bedGraph 2.1.1.20160309.0 16.01
Call peaks from bedGraph output 2.1.1.20160309.0 16.01

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