- Although only a "reference-region" overlay is required in principle, also use a "target-region" overlay corresponding to a high-binding region. At the beginning of analysis ("unix% srtm glm.dat"), the reference region is analyzed to give the chi-squared per degree of freedom and other parameters. This enables one to adjust parameters to minimize the chi2/DOF, which is important when using a time variation in a parameter such as k2a.
- Add odd "feature" of this GLM is that BP is in the denominator of k2a, so how does one define "BP" (or "DBP" for "dynamic binding potential") from a condition that tests more than one value of k2a? The answer is that the "BP" value corresponding to a condition is found by first calculating the net k2a, which be the sum or difference of several k2a values, and then calculating BP as k2/k2a - 1. When a gamma function or a sigmoidal function is employed in addition to a constant in challenge design, then the minimum (assuming displacement) DBP value is assigned to the summed condition. So, in the "MRTM2+gamma" example on this page, the condition "AB" outputs a file named BP-AB that contains the value of DBP evaluated at the t=tau location of the time-dependent term. Note that condition "A" gives the baseline BP prior to the challenge, but condition "B" by itself is not useful.