GENETREE

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ucbccka
ucbccka's picture
GENETREE

Hello,
I am new to genetree and using the command

genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

I am trying to generate a file called tree6.ps with data from a file called data6. It comes out with an output on the screen as follows

***********************************************************

1 2 : 2 0
0 2 : 1 0
1 1 : 3 1 0
0 1 : 0

Estimated likelihood of the tree 1.1281e-004, se 1.2110e-006
Mean TMRCA 1.3197e+000, sd 5.5546e-001
Ages of mutations, sd
1 7.56e-001 4.29e-001
2 5.06e-001 3.78e-001
3 1.91e-001 1.77e-001
Sample MRCA distribution in subpopulations
0 1
4.93e-001 5.07e-001
Subpopulation MRCA distribution in subpopulations
0 1
0 5.58e-001 4.42e-001
1 4.75e-001 5.25e-001
Mutation distribution in subpopulations (site x subpopulation)
0 1
1 5.88e-001 4.12e-001
2 2.29e-001 7.71e-001
3 2.98e-001 7.02e-001
Elapsed time = 4 sec
genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

Backward migration rate matrix
0.000 1.000
1.000 0.000

***********************************************************

so it looks like it has done something, but the file where the tree should be is nowhere to be seen. I would appreciate anyone who has used this package to comment if at all possible.

cheers

Soudabeh
Soudabeh's picture
ucbccka wrote:Hello,

ucbccka wrote:

Hello,
I am new to genetree and using the command

genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

I am trying to generate a file called tree6.ps with data from a file called data6. It comes out with an output on the screen as follows

***********************************************************

1 2 : 2 0
0 2 : 1 0
1 1 : 3 1 0
0 1 : 0

Estimated likelihood of the tree 1.1281e-004, se 1.2110e-006
Mean TMRCA 1.3197e+000, sd 5.5546e-001
Ages of mutations, sd
1 7.56e-001 4.29e-001
2 5.06e-001 3.78e-001
3 1.91e-001 1.77e-001
Sample MRCA distribution in subpopulations
0 1
4.93e-001 5.07e-001
Subpopulation MRCA distribution in subpopulations
0 1
0 5.58e-001 4.42e-001
1 4.75e-001 5.25e-001
Mutation distribution in subpopulations (site x subpopulation)
0 1
1 5.88e-001 4.12e-001
2 2.29e-001 7.71e-001
3 2.98e-001 7.02e-001
Elapsed time = 4 sec
genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

Backward migration rate matrix
0.000 1.000
1.000 0.000

***********************************************************

so it looks like it has done something, but the file where the tree should be is nowhere to be seen. I would appreciate anyone who has used this package to comment if at all possible.

cheers

ucbccka
ucbccka's picture
Soudabeh wrote:ucbccka wrote

Soudabeh wrote:

ucbccka wrote:
Hello,
I am new to genetree and using the command

genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

I am trying to generate a file called tree6.ps with data from a file called data6. It comes out with an output on the screen as follows

***********************************************************

1 2 : 2 0
0 2 : 1 0
1 1 : 3 1 0
0 1 : 0

Estimated likelihood of the tree 1.1281e-004, se 1.2110e-006
Mean TMRCA 1.3197e+000, sd 5.5546e-001
Ages of mutations, sd
1 7.56e-001 4.29e-001
2 5.06e-001 3.78e-001
3 1.91e-001 1.77e-001
Sample MRCA distribution in subpopulations
0 1
4.93e-001 5.07e-001
Subpopulation MRCA distribution in subpopulations
0 1
0 5.58e-001 4.42e-001
1 4.75e-001 5.25e-001
Mutation distribution in subpopulations (site x subpopulation)
0 1
1 5.88e-001 4.12e-001
2 2.29e-001 7.71e-001
3 2.98e-001 7.02e-001
Elapsed time = 4 sec
genetree data6 2.0 100000 6652 -o 6 -c tree6.ps -m mig

Backward migration rate matrix
0.000 1.000
1.000 0.000

***********************************************************

so it looks like it has done something, but the file where the tree should be is nowhere to be seen. I would appreciate anyone who has used this package to comment if at all possible.

cheers

Err, come again?