# This file contains the list of meta parameters of comparative gene prediction which are subject to optimization. # All other meta parameters are chosen as given in the species parameter file. The order # of the parameters determines the order in the optimization process. # Basically, different values for these meta parameters are tried out and the ones # giving best performance on the evaluation set are chosen. # For each parameter the range of possible values is specified after the parameter # name and at least one white space. # 3 cases are possible for the range: # - an explicit list is given, e.g. protein "on" "off" # - it is an integer range, e.g. window_size "1"-"5" # - it is a range of floating point numbers, e.g. pseudocount "0.3"_"1.8" # # # Stefanie Koenig, 9.4.2015 # /CompPred/ec_thold "-1.5"_"1.5" /CompPred/ic_thold "-1.5"_"1.5" /CompPred/exon_gain "0.00001"_"0.1" # rate of exon gain /CompPred/exon_loss "0.00001"_"0.1" # rate of exon loss /CompPred/phylo_factor "1"-"20" # comment parameters out that you do not want to be subject of optimization #/CompPred/dd_factor "1"-"100"