public static void PrintDictionaryContentsToConsole(WGCNA wgcnaobject)
{
foreach (KeyValuePair <string, double> entry in wgcnaobject.ExpData)
{
Console.WriteLine("Accession = {0}; Intensity = {1}", entry.Key, entry.Value);
}
}
public static double[,] CreatePearsonMatrix(this List <List <double> > intensitiesList)
{
int[] counts = intensitiesList.CountListsReturnInt();
double[,] corrMatrix = new double[counts[0], counts[0]];
for (int i = 0; i < counts[0]; i++)
{
for (int j = 0; j < counts[0]; j++)
{
corrMatrix[i, j] = WGCNA.CalculatePearsonCorrelation(intensitiesList.ElementAt(i), intensitiesList.ElementAt(j));
}
}
return(corrMatrix);
}
static void Main()
{
string[] accessions = { "P0001", "P0002", "P0003" };
double[] intensities1 = { 15.0, 14.0, 13.0 };
double[] intensities2 = { 16.0, 14.0, 12.0 };
double[] intensities3 = { 17.0, 12, 11 };
WGCNA sample1 = new WGCNA(accessions, intensities1); sample1.Sample = "Sample1"; sample1.ExperimentalGroup = "Group1";
WGCNA sample2 = new WGCNA(accessions, intensities2); sample2.Sample = "Sample2"; sample2.ExperimentalGroup = "Group1";
WGCNA sample3 = new WGCNA(accessions, intensities3); sample3.Sample = "Sample3"; sample3.ExperimentalGroup = "Group1";
WGCNA sample4 = new WGCNA(accessions, intensities1); sample3.Sample = "Sample4"; sample3.ExperimentalGroup = "Group2";
Experiment Experiment1 = new Experiment();
Experiment1.AddSample(sample1);
Experiment1.AddSample(sample2);
Experiment1.AddSample(sample3);
int beta = 12;
Experiment1.PerformWGCNA(beta);
}
public static double[,] CreateAdjacencyMatrix(this double[,] corrMatrix, int beta)
{
return(WGCNA.CreateAdjacencyMatrix(corrMatrix, beta));
}