MACS2
Description
MACS (Model-based Analysis of ChIP-Seq) is an analysis tool for NGS ChIP-Seq data. MACS empirically models the length of the sequenced ChIP fragments and uses it to improve the spatial resolution of predicted binding sites.
MACS also uses a dynamic Poisson distribution to effectively capture local biases in the genome sequence, allowing for more sensitive and robust prediction. MACS compares can be used for ChIP-Seq with or without control samples.
License
Free to use and open source under BSD 3-Clause License.
Available
Version on CSC's Servers
- Puhti: 2.2.7.1, 3.0.0a7
- Chipster graphical user interface
Usage
To set up MACS2 and MACS3 commands in puhti, give command:
module load macs
Module macs/2.2.7.1 also loads MACS 3.0.0a7.
After that you can start MACS with command:
macs2 -h
macs3 -h
Short MACS jobs can be executed as interactive batch jobs in Puhti. Longer jobs should be run as batch jobs.