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COSINE (version 2.0)
COndition SpecIfic sub-NEtwork
Description
To identify the globally most discriminative subnetwork from gene expression profiles using an optimization model and genetic algorithm
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2.1
2.0
1.0
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Install
install.packages('COSINE')
Monthly Downloads
39
Version
2.0
License
GPL (>= 2)
Maintainer
Haisu Ma
Last Published
March 27th, 2014
Functions in COSINE (2.0)
Search functions
GA_search
Use genetic algorithm to search for the globally optimal subnetwork
diff_gen
Calculate the F-statistics and ECF-statistics
simulated_data
The simulated data sets used in the paper
set1_scaled_diff
The standardized F-statistics and ECF-statistics for the comparison between simulated data1 and the control data
choose_lambda
Choose the most appropriate weight parameter lambda
diff_gen_for3
Generate the F-statistics and ECF-statistics for the comparison of three datasets
get_quantiles
Get the five quantiles of the weight parameter lambda
f.test
To get the F-statistics for each gene
COSINE-package
COndition SpecIfic subNEtwork identification
DataSimu
Simulation of the six datasets and the case dataset
set1_unscaled_diff
The unstandardized F-statistics and ECF-statistics of simulated dataset 1
set1_GA
Result of genetic algorithm search for simulated data set1
cond.fyx
Compute the ECF-statistics measuring the differential correlation of gene pairs
score_scaling
To get the normalzied F-statistics and ECF-statistics