groupget

Returns the linkage group from its group number.

Synopsis :

The CarthaGene groupget command is invoked as either one of :

• groupget Options
• groupget GrID

Description :

groupget returns a linkage group as a list of markers from its group number (or so-called Group ID). The command group must have been claled before hand to compute these groups.

Arguments :

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

Returns :

The contents of the linkage group as a list of markers.

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/rh.cg
{1 haploid RH 53 118 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/rh.cg}
CG> group 0.3 3

Linkage Groups :
---------------:
LOD threshold=3.00
Distance threshold=30.00:

 Group ID : Marker ID List ...
        1 : 52
        2 : 42 48 47 45 46 44 43
        3 : 41
        4 : 38
        5 : 37 39
        6 : 36 40
        7 : 35
        8 : 25
        9 : 22
       10 : 19 32 31 28 30 27 26 20 21
       11 : 13 14
       12 : 11 12
       13 : 10 15 16 18 17
       14 : 7
       15 : 6 51 8 53 50 9
       16 : 4 34 33 24 23 5
       17 : 3 29
       18 : 2 49
       19 : 1
19
CG> groupget 10
19 32 31 28 30 27 26 20 21
CG> mrkselset [groupget 10]

CG> sem

Map -1 : log10-likelihood =  -161.87
-------:
 Set : Marker List ...
   1 : G5 G18 G17 G14 G16 G13 G12 G6 G7

See also :

• group (2.3.18)