mapget

`mapget`

Returns a list describing the map with a given numerical Id in the heap.

Synopsis:

The mapget command is invoked either as:

mapget Options
mapget Unit MapId

Description:

The mapget command returns a list that describes the map whose numerical id in the heap is MapId. The list contains successively:

the numerical Id of the map in the heap (MapId)
the map's overall maximum loglikelihood (in $\log_{10}$ units)
a sequence of sublist, one for each current data-set for which parameters are estimated (merged by mergor). These sublists contain successively:
- the data set numerical Id,
- the map loglikelihood in this data-set (in $\log_{10}$ units)
- the name of each loci separated by their distances in the requested Unit (either Haldane (h) or Kosambi (k) for genetic data, Rays are always used for radiated hybrid data)

Arguments:

Options : -u to obtain the synopsys of the normal use, -h to print a one line description, -H to print a short help.
Unit: the distance function used to compute distances from recombination/breakage ratios. It is either Haldane (h) or Kosambi (k) for genetic data. Rays are always used for radiated hybrid data.
MapId: the numerical Id of the map in the heap.

Returns:

a list describing the map. See above.

Example:

   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/bc1.cg
{1 f2 backcross 17 208 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/b...
CG> dsload Data/rh1.cg
{2 haploid RH 13 118 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/rh1...
CG> dsmergor 1 2
{3 merged by order 21 326}
CG> sem

Map -1 : log10-likelihood =  -795.54
-------:
 Set : Marker List ...
   1 : MS4 MS5 MS13 MS6 MS11 MS17 MS16 MS8 MS7 MS2 MS3 MS9 MS15 MS12 MS20 M...
   2 : MS4 MS5      MS6                MS8 MS7     MS3 MS9 MS15            ...

CG> mapget k 0
0 -795.54 {1 -479.22 MS4 0.0 MS5 3.3 MS13 38.8 MS6 64.2 MS11 86.4 MS17 137.9 \
MS16 159.5 MS8 186.5 MS7 192.4 MS2 207.4 MS3 208.0 MS9 231.5 MS15 249.3 MS12 \
252.8 MS20 291.1 MS19 293.8 MS1 483.9} {2 -316.32 MS4 0.0 MS5 84.4 MS6 138.5 \
MS8 229.0 MS7 307.2 MS3 493.5 MS9 706.1 MS15 862.8 MS1 1622.9 G36 1726.5 G39 \
1786.2 G37 1845.9 G40 1871.3}