Metagene Projection Run on  Wed_Apr_18_15:37:31_2007
  
Model dataset: 
model.dataset.table
gct.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/AML_only.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Leukemia2/AML_only.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/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: 2
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: 3
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: 4
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: 5
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: 6
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: 7
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: 8
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: 9
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: 10
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.AML
k.proj= 5
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= gray60 red1 steelblue darkgreen purple1 gray60 gray40 red1 red3 red4 steelblue darkgreen purple1 orchid purple4
symbs= 22 22 22 22 22 24 25 21 23 24 25 21 23 24 25
symbol.scaling= 0.55
kernel= radial
cost= 1
gamma= 0.05
theta= 0
lambda= 1
model.set.refinement= TRUE
