Metagene Projection Run on  Wed_Apr_18_14:33:20_2007
  
Model dataset: 
model.dataset.table
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Ross_et_al.2.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Ross_et_al.2.cls
column.subset ALL
column.sel.type samples
thres 20
ceil 1e+05
fold 8
delta 800
norm 6
  
Test dataset: 1
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.cls
column.subset c(1, 2, 13, 18, 27, 29, 39, 44, 45, 47, 49)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 2
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.cls
column.subset c(2, 3, 4, 5, 6, 7, 8, 9, 10)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 3
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Armstrong_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Armstrong_et_al.cls
column.subset c(25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 4
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.cls
column.subset c(5, 10, 14, 19, 22, 28, 37, 38, 43, 48, 52)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 5
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Chiaretti_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Chiaretti_et_al.cls
column.subset ALL
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 6
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.cls
column.subset c(12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 7
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Yeoh_et_al.cls
column.subset c(42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 8
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Fine_et_al.cls
column.subset c(6, 9, 15, 16, 17, 20, 23, 24, 25, 30, 33, 42, 51)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 9
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.cls
column.subset c(56, 53, 106, 16, 107, 50, 105, 55, 52, 108, 54)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 10
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 11
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Gutierrez_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Gutierrez_et_al.cls
column.subset c(1, 2, 3, 4, 5, 6, 7)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 12
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.cls
column.subset c(23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 13
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.cls
column.subset c(60, 62, 66, 58, 64, 57, 65, 99, 61, 59, 67, 63)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 14
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bourquin_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bourquin_et_al.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 15
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.cls
column.subset c(41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 16
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Gutierrez_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Gutierrez_et_al.cls
column.subset c(8, 9, 10, 11)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 17
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Valk_et_al.cls
column.subset c(58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76)
column.sel.type samples
thres 20
ceil 1e+05
norm 6
   
Test dataset: 18
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/Bullinger_et_al.cls
column.subset c(78, 86, 93, 97, 49, 45, 96, 95, 92, 48, 68, 91, 69, 94, 47)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Parameters:
identifier= Leukemia2
k.proj= 10
alg= NMF.div
niter= 2000
seed= 1234
nchar.phen= 9
postprojnorm= TRUE
heatmap.row.norm= FALSE
heatmap.cmap.type= 6
high.conf.thres= 0.3
output.dir= c:/CGP2006/MPM/Software_and_Examples/Leukemia2/
col= green2 yellow2 paleturquoise2 chocolate3 blue2 gray60 red1 steelblue darkgreen purple1 green2 yellow2 paleturquoise2 paleturquoise4 chocolate3 chocolate4 blue2 blue4 gray60 gray40 red1 red3 red4 steelblue darkgreen purple1 orchid purple4
symbs= 22 22 22 22 22 22 22 22 22 22 21 23 24 21 25 21 23 21 24 25 21 23 24 25 21 23 24 25
symbol.scaling= 0.55
kernel= radial
cost= 1
