ACT Signal File Parameters



Signal file. The Aggregation and Correlation tool is built around analysis of signal files, such as those from microarray or ChIP-chip experiments. These are tab-delimited files containing signals and positions of standard WIG format.

chr1     10        15        2.3

chr1     40        50        5.0

Here, a four-column file specifies that locations 10 through 15 have a signal of 2.3, and locations 40 through 50 have a signal of 5.0.

Regions mask file. This file allows one to specify a filter for the signal file—only signals that fall within the specified locations will be considered for aggregation or correlation. In some cases this can significantly improve the speed at which the programs run, as they allow ACT to focus on specific regions of the specified genome.