Sentence examples for penalty values of from inspiring English sources

The penalty values of the match, unmatch and the insertion\deletion gap (indel) can be adjusted on demand.

Results from this study indicate that there is a significant reduction in the TSP penalty value of the optimized solution, as a result of incorporating SDF criterion during the optimization process.

This is because changepoint detection under a penalty value of 1.0 often divided a single DMV defined in the original study into two or more UMR-like domains.

Phylogenetic tree analysis of the SRF family was performed using an amino acid sequence alignment generated by the program DAMBE [ 135] using a gap penalty value of 20.

Of note, even a single penalty value of 1.0 can substantially, albeit not optimally, cover various methylome characteristics, each of which was originally defined using a distinct set of optimized parameters.

Through careful evaluation of the effects of penalty values from a practical point of view, we empirically decided to use a single penalty value of 1.0 throughout this study unless otherwise noted, because it seemed to give, in most cases, a good balance between sensitivity and specificity in domain detection.

While the penalty value of 1.0 is a good point to start with, we also recommend users to increase or decrease the penalty value depending on the size and CpG-density of the domains on which they intend to put emphasis (see below).

In this context, it should be noted that the PMD-like domains defined by changepoint detection under a penalty value of 1.0 were generally smaller than the original PMDs defined by a window-based approach: a single large PMD by the original definition was often regarded as a cluster of many smaller PMDs by changepoint detection (Additional file 4).

The effect of penalty value on the interface model and of the smoothing length of the SPH method are also analysed during these simulations.

To prevent over-segmentation, changepoint detection uses a penalty value for placement of boundaries (see formula (2)).

The path similarity serves as a penalty value to the support value of a cluster of messages.