Table 1

Triform parameters
Parameter Description
w read width, symmetrically extended to a fixed value (default 100 bp)
δ fixed spacing between central and flanking locations (must be > w, default 150 bp)
r actual ratio between control and ChIP-Seq library sizes
min.z fixed minimum upper-tail z-value (default corresponds to standard normal p = 0.1)
min.n fixed minimum number of bp (peak width) in peak-like region (default 10 bp) fixed minimum local enrichment ratio (default 3/8 quantile of the enrichment ratio)
min.lag fixed minimum inter-strand lag between peak coverage distributions (default 10 bp)

Kornacker et al.

Kornacker et al. BMC Bioinformatics 2012 13:176   doi:10.1186/1471-2105-13-176

Open Data