Experimental Results on Some Test Files (Superlink v1.0)

(updated January 2nd 2002)



Experiment 1: (Same topology, increasing number of loci)
 

Files
No. of People
 No.of Loci
 No. of Alleles
With Loops
Ln-Likelihood/
LodScore
Run 
Time
(Superlink)
Run Time
(Fastlink)
Run Time
(Vitesse)
Run Time
(Genehunter)
datafileEA0/pedfileEA0
57 
2
4-5
NO
-173.338440/-0.402989
0.03 
0.12 
0.27 
****
datafileEA1/pedfileEA1
57 
5
4-5
NO
-401.767826/-0.416433
0.10 
3.77 
0.31 
****
datafileEA2/pedfileEA2
57 
6
4-5
NO
-490.965869/-0.409874
0.14 
79.32 
0.39 
****
datafileEA3/pedfileEA3
57 
7
4-5
NO
-576.301711/-0.409874
0.42 
*
0.69 
****
datafileEA4/pedfileEA4
57 
8
4-5
NO
-646.421072/-0.409874
0.36 
*
2.81 
****
datafileEA5/pedfileEA5
57
10
4-5
NO
 -801.656077/-0.409874
1.19
 *
 84.66
****
datafileEA6/pedfileEA6
 57
 12
 4-5
 NO
 -981.666853/-0.409873
 4.65
 *
 *
****
datafileEA7/pedfileEA7
 57
 14
 4-5
 NO
 -1147.956607/-0.409873
3.01 
 *
 *
****
datafileEA8/pedfileEA8
 57
 18
 4-5
 NO
 -1478.853469/-0.409873
 20.98
 *
 *
****
datafileEA9/pedfileEA9
 57
 37
 4-5
 NO
 -3039.388265/-0.409873
 8510.15
  *
  *
****
datafileEA10/pedfileEA10
 57
 38
 4-5
 NO
 -3156.354841/-0.409873
 10446.27
 *
 *
****
datafileEA11/pedfileEA11
57
40
4-5
NO
-----
*****
*
*
****

Experiment 2: (Same topology, increasing number of loci)
 

Files
No. of People
 No.of Loci
No. of Alleles
With Loops
Ln-Likelihood/
LodScore
Run 
Time
(Superlink)
Run Time
(Fastlink)
Run Time
(Vitesse)
Run Time
(Genehunter)
datafileEB0/pedfileEB0
100
5
5-10
YES
-838.665732/-1.186642
2.56 
3933.7
***
****
datafileEB1/pedfileEB1
100
6
5-10
YES
-1102.871006/-1.183475
2.63
*
***
****
datafileEB2/pedfileEB2
100
10
5-10
YES
-1932.046146/-1.188459
82.56
*
***
****
datafileEB3/pedfileEB3
100
12
5-10
YES
-2277.816412/-1.188459
437.55
*
***
****
datafileEB4/pedfileEB4
100
13
5-10
YES
-2423.586809/-1.188459
17.29
*
***
****
datafileEB5/pedfileEB5
100
14
5-10
YES
-2641.274448/-1.188459
278.8
*
***
****
datafileEB6/pedfileEB6
100
15
5-10
YES
-2827.245998/-1.188459
935.86
*
***
****
datafileEB7/pedfileEB7
100
16
5-10
YES
-3008.883882/-1.188459
902.8
*
***
****
datafileEB8/pedfileEB8
100
17
5-10
YES
-3190.309824/-1.188459
288.2
*
***
****
datafileEB9/pedfileEB9
100
18
5-10
YES
-3365.348965/-1.188459
113.96
*
***
****
datafileEB10/pedfileEB10
100
19
5-10
YES
-3599.559449/-1.188459
 2901.25
*
***
****
datafileEB11/pedfileEB11
100
20
5-10
YES
-3889.632883/-1.188459
 143640.22
*
***
****

Experiment 3: (Different topologies)
 
Files
No. of People
No.of Loci
 No. of Alleles
 With Loops
Ln-Likelihood/
LodScore
 Run 
Time
(Superlink)
 Run Time
(Fastlink)
 Run Time
(Vitesse)
 Run Time
(Genehunter)
datafileEC0/pedfileEC0
100
6
2
YES
-446.667268/0.014540
27.62
382.88
***
****
datafileEC1/pedfileEC1
100
7
2
NO
-506.520876/0.151373
2.43
0.82
0.40
****
datafileEC2/pedfileEC2
100
8
2
YES
-577.840308/-0.041029
0.56
 12.59
***
****
datafileEC3/pedfileEC3
100
10
2
NO
-772.083821/-0.053660
16.36
**
22.79
****
datafileEC4/pedfileEC4
100
15
5-10
NO
-2918.451233/-0.186239
1.00
*
*
****
datafileEC5/pedfileEC5
20
15
2
NO
-248.830395/0.028368
44.1
*
*
****
datafileEC6/pedfileEC6
15
20
2
NO
-227.658948/-0.081496
35.32
*
*
****
datafileEC7/pedfileEC7
15
22
2
NO
-254.750791/-0.081557
102.56
*
*
****
datafileEC8/pedfileEC8
150
8
5-7
YES
-1896.360778/-0.55821
0.87
*
***
****
datafileEC9/pedfileEC9
150
10
5-7
YES
-2493.235175/-0.55821
1.28
*
***
****
datafileEC10/pedfileEC10
5
100
3-6
NO
-1007.835833/ 0.000067
0.06
**
*
0.41 (#)
datafileEC11/pedfileEC11
5
110
3-6
NO
-1103.826326/ 0.000067
0.08
**
*
0.45 (#)

Experiment 4: (Same topology, increasing number of loci)
 

Files
No. of People
No.of 
Loci
No. of Alleles
With Loops
Ln-Likelihood/
LodScore
Run 
Time
(Superlink)
Run 
Time
(Fastlink)
Run 
Time
(Vitesse)
Run Time
(Genehunter)
datafileED0/pedfileED0
5
100
3-6
NO
-872.452335/0.01551
0.16
**
*
0.41 (#)
datafileED1/pedfileED1
5
110
3-6
NO
-963.462286/0.01551
0.2
**
*
0.45 (#)
datafileED2/pedfileED2
5
120
3-6
NO
-1048.810672/0.01551
0.21
**
*
0.48 (#)
datafileED3/pedfileED3
5
130
3-6
NO
-1129.446493/0.01551
0.22
**
*
0.49 (#)
datafileED4/pedfileED4
5
140
3-6
NO
-1208.635957/0.01551
0.24
**
*
0.51 (#)
datafileED5/pedfileED5
5
150
3-6
NO
-1305.520497/0.01551
0.25
**
*
0.53 (#)
datafileED6/pedfileED6
5
160
3-6
NO
-1389.653563/0.01551
0.27
**
*
0.54 (#)
datafileED7/pedfileED7
5
170
3-6
NO
-1480.392427/0.01551
0.3
**
*
0.6 (#)
datafileED8/pedfileED8
5
180
3-6
NO
-1555.181718/0.01551
0.3
**
*
0.59 (#)
datafileED9/pedfileED9
5
190
3-6
NO
-1631.090005/0.01551
0.32
**
*
0.61 (#)
datafileED10/pedfileED10
5
200
3-6
NO
-1708.987856/0.01551
0.34
**
*
0.66 (#)
datafileED11/pedfileED11
5
210
3-6
NO
-1799.752965/0.01551
0.37
**
*
0.67 (#)

            Clarifications to the tables:



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