fconcorde

`fconcorde`

Computes an intuitively nice marker ordering using 2-points loglikelihoods.

Synopsis:

The fconcorde command is invoked without any parameters.

The fconcorde command converts the current marker selection and associated genetic / Radiated Hybrid data into a Traveling Salesman Problem which is solved using William Cook's Concorde software. Concorde is an exact method which always returns the optimum. An executable file concorde must be made accessible in your PATH Linux environment variable.

No arguments

Returns:

nothing.

Example:

CG> dsload Data/rh.cg
{1 haploid RH 53 118 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/rh.cg}
CG> fconcorde
All TSP costs multiplied by 1000.
TSP: optimum= 801.055 bbnodes= 1 totaltime= 0.06 sec.
and, in multi-points:

Map -1 : log10-likelihood =  -822.89
-------:
 Set : Marker List ...
   1 : MS1 G39 MS3 MS2 G37 G40 G36 MS4 G3 G4 MS5 G1 G2 MS6 MS7 MS9 MS8 G21 G2\
6 G22 G25 G23 G27 G24 G28 G34 G33 G30 G31 G29 G32 G35 MS13 MS20 G10 G9 MS19 G\
19 MS17 G20 G11 G8 G7 G12 G13 G16 G6 G5 G17 G18 G14 MS15 G15


CG>

CG>

`fconcorde`

Synopsis:

Description:

No arguments

Returns:

Example:

See also: