Computes an intuitively nice marker ordering using normalized 2-points Obligate Chromosome Breaks criterion.
The lkhocbn command is invoked as either one of :
CarthaGene version 1.2-LKH, Copyright (c) 1997-2010 (INRA). CarthaGene comes with ABSOLUTELY NO WARRANTY. CarthaGene is free software. You are welcome to redistribute it, under certain conditions. See the License file for information. Type 'help' for help. CG> dsload Data/rh.cg {1 haploid RH 53 118 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/rh.cg} CG> lkhocbn 1 -1 [-823.85] Best map with log10-likelihood = -823.85 TSP: optimum= 627.818000 lowerbound= 627.582000 gap= 0.037605% totaltime= 0.01 Map -1 : log10-likelihood = -823.85 -------: Set : Marker List ... 1 : MS17 G20 G19 MS19 G9 G10 G11 G8 G7 G12 G13 G16 G6 G5 G17 G18 G14 G15 M\ S15 G35 MS13 G32 G29 G31 G30 G33 G34 G28 G24 G27 G23 G25 G22 G26 G21 MS8 MS9 \ MS7 MS6 G2 G1 MS5 G4 G3 MS4 G36 G40 G37 MS2 MS3 G39 MS1 MS20 CG>
Thomas Schiex 2018-03-23