MACS
default: 2.7e+9
default: 1e-5
Select the regions within MFOLD range of high-confidence enrichment ratio against background to build model. The regions must be lower than upper limit, and higher than the lower limit
up to 9X more time consuming
up to 9X more time consuming

What it does

This tool allows ChIP-seq peak calling using MACS.

Depending upon selected options, 2 to 6 history items will be created; the first output will be a standard BED file and the last will be an HTML report containing links to download additional files generated by MACS. Up to two each of wig and interval files can be optionally created; the interval files are parsed from the xls output.

View the original MACS documentation: http://liulab.dfci.harvard.edu/MACS/00README.html.


Citation

For the underlying tool, please cite Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.

If you use this tool in Galaxy, please cite Blankenberg D, et al. In preparation.