mfmapd

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

Synopsis:

The mfmapd command is invoked as either one of :

• mfmapd Options
• mfmapd

Description:

The mfmapd command builds gradually a map by inserting the best (whose distances are minima) available pairs of markers among the current list of active markers. This ``Greedy'' heuristic applies a multi-fragment (mf) strategy: several order fragments of markers which are close together are constructed and then linked together.

Warning: since 2-points estimations are typically unavailable for some pairs of markers when data-sets are merged, this command will return very poor maps on such merged data. This command should especially not be used when two data-sets have been merged with separate parameters estimation (using mergor).

Arguments:

• Options : -u to obtain the synopsys of the normal use, -h to print a one line description, -H to print a short help.

Returns:

nothing.

Example:

CG> dsload Data/bc.cg
{1 f2 backcross 20 208 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/b...
CG> mfmapd

Map -1 : log10-likelihood =  -321.28
-------:
 Set : Marker List ...
   1 : MS1 MS2 MS3 MS4 MS5 MS7 MS6 MS8 MS11 MS10 MS9 MS14 MS12 MS13 MS16 MS15\
 MS17 MS18 MS19 MS20

See also:

• mfmapl (2.5.6)
• nicemapd (2.5.5)
• nicemapl (2.5.4)
• sem (2.5.2)