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step1,dream3 datasets evaluating...
main_locpcacmi_DREAM3_Ecoli_tpl_lamda sub networks generator start
main_locpcacmi_DREAM3_Ecoli_tpl_lamda sub networks generator end
main_locpcacmi_DREAM3_Yeast_tpl_lamda sub networks generator start
main_locpcacmi_DREAM3_Yeast_tpl_lamda sub networks generator end
#########PCA_CMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_cmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0100
Elapsed time is 0.352634 seconds.
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########PCA_PMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_pmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0100
Elapsed time is 0.399472 seconds.
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########loc_PCA_CMI######## starts... with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
parameters:
datafile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
goldenfile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt
clusterfile: /home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat
-----------
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
Calulate zero order partial correlation (the general correlation)...
Warning message:
In fdrtool::fdrtool(abs(cor.vector), statistic = "correlation", :
There may be too few input test statistics for reliable FDR calculations!
1th/#5 :[ X1 X2 X3 X4 X5 ]
2th/#2 :[ X1 X2 ]
3th/#3 :[ X1 X3 X5 ]
4th/#3 :[ X1 X4 X6 ]
5th/#4 :[ X1 X3 X5 X7 ]
6th/#2 :[ X4 X6 ]
7th/#4 :[ X5 X7 X8 X10 ]
8th/#2 :[ X7 X8 ]
9th/#1 :[ X9 ]
10th/#2 :[ X7 X10 ]
There were 50 or more warnings (use warnings() to see the first 50)
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
clusterfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0100
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########loc_PCA_PMI######## starts... with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
parameters:
datafile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
goldenfile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt
clusterfile: /home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat
-----------
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
Calulate zero order partial correlation (the general correlation)...
Warning message:
In fdrtool::fdrtool(abs(cor.vector), statistic = "correlation", :
There may be too few input test statistics for reliable FDR calculations!
1th/#5 :[ X1 X2 X3 X4 X5 ]
2th/#2 :[ X1 X2 ]
3th/#3 :[ X1 X3 X5 ]
4th/#3 :[ X1 X4 X6 ]
5th/#4 :[ X1 X3 X5 X7 ]
6th/#2 :[ X4 X6 ]
7th/#4 :[ X5 X7 X8 X10 ]
8th/#2 :[ X7 X8 ]
9th/#1 :[ X9 ]
10th/#2 :[ X7 X10 ]
There were 50 or more warnings (use warnings() to see the first 50)
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
clusterfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcapmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0100
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########PCA_CMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_cmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0200
No edge is reduce! Algorithm finished!
Elapsed time is 0.331065 seconds.
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########PCA_PMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_pmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0200
Elapsed time is 0.365385 seconds.
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########loc_PCA_CMI######## starts... with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
parameters:
datafile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
goldenfile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt
clusterfile: /home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat
-----------
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
Calulate zero order partial correlation (the general correlation)...
Warning message:
In fdrtool::fdrtool(abs(cor.vector), statistic = "correlation", :
There may be too few input test statistics for reliable FDR calculations!
1th/#5 :[ X1 X2 X3 X4 X5 ]
2th/#2 :[ X1 X2 ]
3th/#3 :[ X1 X3 X5 ]
4th/#3 :[ X1 X4 X6 ]
5th/#4 :[ X1 X3 X5 X7 ]
6th/#2 :[ X4 X6 ]
7th/#4 :[ X5 X7 X8 X10 ]
8th/#2 :[ X7 X8 ]
9th/#1 :[ X9 ]
10th/#2 :[ X7 X10 ]
There were 50 or more warnings (use warnings() to see the first 50)
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
clusterfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0200
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
No edge is reduce! Algorithm finished!
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########loc_PCA_PMI######## starts... with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
parameters:
datafile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
goldenfile: /home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt
clusterfile: /home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat
-----------
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
Calulate zero order partial correlation (the general correlation)...
Warning message:
In fdrtool::fdrtool(abs(cor.vector), statistic = "correlation", :
There may be too few input test statistics for reliable FDR calculations!
1th/#5 :[ X1 X2 X3 X4 X5 ]
2th/#2 :[ X1 X2 ]
3th/#3 :[ X1 X3 X5 ]
4th/#3 :[ X1 X4 X6 ]
5th/#4 :[ X1 X3 X5 X7 ]
6th/#2 :[ X4 X6 ]
7th/#4 :[ X5 X7 X8 X10 ]
8th/#2 :[ X7 X8 ]
9th/#1 :[ X9 ]
10th/#2 :[ X7 X10 ]
There were 50 or more warnings (use warnings() to see the first 50)
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
clusterfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcacmi_lamda/Dream10_Yeast_cluster.mat'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_loc_pcapmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0200
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########PCA_CMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_cmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =
0.0300
No edge is reduce! Algorithm finished!
Elapsed time is 0.338240 seconds.
R.matlab v3.6.2 (2018-09-26) successfully loaded. See ?R.matlab for help.
Attaching package: ‘R.matlab’
The following objects are masked from ‘package:base’:
getOption, isOpen
Attaching package: ‘igraph’
The following objects are masked from ‘package:stats’:
decompose, spectrum
The following object is masked from ‘package:base’:
union
── Column specification ────────────────────────────────────────────────────────
cols(
X1 = col_double(),
X2 = col_double(),
X3 = col_double(),
X4 = col_double(),
X5 = col_double(),
X6 = col_double(),
X7 = col_double(),
X8 = col_double(),
X9 = col_double(),
X10 = col_double()
)
There were 50 or more warnings (use warnings() to see the first 50)
Warning messages:
1: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
networks have not the same node names
2: In validate(as.matrix(dream3_net), as.matrix(dream3_golden)) :
true network arcs will be considerd as undirected edges
#########PCA_PMI######## starts...with source:/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv
< M A T L A B (R) >
Copyright 1984-2018 The MathWorks, Inc.
R2018b (9.5.0.944444) 64-bit (glnxa64)
August 28, 2018
To get started, type doc.
For product information, visit www.mathworks.com.
datafile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast.csv'
goldenfile =
'/home/cb213/chenx/Loc-PCA-CMI/db/Dream10/Dream10_Yeast_golden.txt'
adjmatrixfile =
'/home/cb213/chenx/Loc-PCA-CMI/result_pca_pmi_lamda/Dream10_Yeast_adjmatrixg.mat'
order0 =
2
lamda =