Metagene Projection Run on  Wed_Apr_18_14:34:51_2007
  
Model dataset: 
model.dataset.table
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/boston.plus.cell.lines.maxed.2.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/boston.plus.cell.lines.2.cls
column.subset c(6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82)
column.sel.type samples
thres NULL
ceil NULL
fold 3
delta 300
norm 6
  
Test dataset: 1
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.cls
column.subset c(42, 43, 44, 46, 47, 48, 49, 53, 54, 55)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 2
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/michigan.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/michigan.2.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34)
column.sel.type samples
thres 20
ceil 16000
norm 6
   
Test dataset: 3
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford_no_nulls.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford.3.cls
column.subset c(2, 8, 9, 13, 18, 28, 31, 34, 35, 36, 4, 11, 25, 30, 37, 42, 43, 50, 58, 59)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 4
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/jones_no_nulls.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/jones.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 5
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.cls
column.subset c(45, 61, 62, 63, 64, 65, 66, 90)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 6
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford_no_nulls.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford.3.cls
column.subset c(1, 10, 15, 16, 39, 40, 48, 55, 64, 69)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 7
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford_no_nulls.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/stanford.3.cls
column.subset c(54, 56, 60, 63, 66)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 8
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/boston.plus.cell.lines.maxed.2.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/boston.plus.cell.lines.2.cls
column.subset c(1, 2, 3, 4, 5)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 9
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.cls
column.subset c(1, 3, 7, 15, 17, 18, 23, 25, 26, 29, 33)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 10
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/NCI60.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/NCI60.maxed.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 11
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/GDS1688.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/GDS1688.maxed.cls
column.subset c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 12
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/virtanen.cls
column.subset c(5, 19, 20, 21, 22, 31, 35, 37)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Test dataset: 13
V1
gct.file c:/CGP2006/MPM/Software_and_Examples/Lung/GDS1688.maxed.gct
cls.file c:/CGP2006/MPM/Software_and_Examples/Lung/GDS1688.maxed.cls
column.subset c(21, 22, 23, 24, 25, 26, 27, 28, 29)
column.sel.type samples
thres NULL
ceil NULL
norm 6
   
Parameters:
identifier= Lung.1
k.proj= 4
alg= NMF.div
niter= 2000
seed= 1789
nchar.phen= 3
postprojnorm= TRUE
heatmap.row.norm= FALSE
heatmap.cmap.type= 6
high.conf.thres= 0.3
output.dir= c:/CGP2006/MPM/Software_and_Examples/Lung/
col= blue red green blue blue blue blue red red green steelblue steelblue steelblue steelblue darkred darkred
symbs= 22 22 22 21 23 24 25 21 24 24 22 21 25 24 21 24
symbol.scaling= 0.55
kernel= radial
cost= 1
gamma= 5
theta= 0
lambda= 1
model.set.refinement= TRUE
