NEWS

triplex 1.2.0

It's now possible to set custom scoring and isogroup tables through triplex.search interface.
New triplex.score.table and triplex.group.table functions for getting default scoring and isogroup tables to make the customization process almost effortless.
Dynamic algorithm optimization technique implemented as a computational reduction based on minimal score option.
Optimized usage of processor data cache - the computation was divided into smaller pieces to prevent cache misses.

Fixed P-value definition, Fixed P-value definition, now it depends on sequence length. See vignette for details.
Fixed splitting sequence into smaller computational pieces. The end of larger sequences was not searched properly.
Fixed handling of special IUPAC symbols (R, M, W, D, etc.). These are now cut off as N and - symbols.
Fixed scoring matrices for matches and geometrical compatibility. They were combined with wrong types of triplexes. Among other things this caused the output of the program to be slightly innaccurate for certain types of triplexes.