public Core20Paired(string fileName, bool invertClasses)
{
core = Core35.Deserialize(fileName);
InvertClasses = invertClasses;
if (invertClasses)
{
List <int> labels = core.SEProFiles.Select(a => a.ClassLabel).Distinct().ToList();
if (labels.Count > 2)
{
throw new Exception("Switch labels can only be used in dataset with two classes.");
}
int l1 = labels[0];
int l2 = labels[1];
//Invert in SEPro
List <SEProFileInfo> sepF1 = core.SEProFiles.FindAll(a => a.ClassLabel == l1);
List <SEProFileInfo> sepF2 = core.SEProFiles.FindAll(a => a.ClassLabel == l2);
foreach (var s in sepF1)
{
s.ClassLabel = l2;
}
foreach (var s in sepF2)
{
s.ClassLabel = l1;
}
//Invert in Associations
List <AssociationItem> a1 = core.MyAssociationItems.FindAll(a => a.Label == l1);
List <AssociationItem> a2 = core.MyAssociationItems.FindAll(a => a.Label == l2);
foreach (var a in a1)
{
a.Label = l2;
}
foreach (var a in a2)
{
a.Label = l1;
}
//Invert in Quant Packages
List <QuantPackage2> q1 = core.myQuantPkgs.FindAll(a => a.ClassLabel == l1);
List <QuantPackage2> q2 = core.myQuantPkgs.FindAll(a => a.ClassLabel == l2);
foreach (var q in q1)
{
q.ClassLabel = l2;
}
foreach (var q in q2)
{
q.ClassLabel = l1;
}
}
}
private void Button_Click(object sender, RoutedEventArgs e)
{
string file = @"C:\Users\paulo_000\Desktop\OngoingColaborations\brunoro\BreastCancerXIC2016.xic";
core = XQuant.Core35.Deserialize(file);
ButtonProcess.IsEnabled = true;
Console.WriteLine("Done loading " + file);
}
private void buttonSEProQ2_Click(object sender, EventArgs e)
{
saveFileDialog1.Filter = "XIC Files (xic)|*.xic";
if (saveFileDialog1.ShowDialog() != System.Windows.Forms.DialogResult.Cancel)
{
buttonProcessXIC.Text = "Working";
this.Update();
XQuant.XQuantClusteringParameters cp = parametersXQuant.MyXQuantClusteringParameters;
cp.MinMS1Counts = 1;
cp.RetainOptimal = true;
cp.OnlyUniquePeptides = false;
cp.MaxParsimony = false;
Core35 XICAnalyzer = new Core35(multipleDirectorySelector1.MyDirectoryDescriptionDictionary, cp);
XICAnalyzer.Serialize(saveFileDialog1.FileName);
MessageBox.Show("XIC file saved successfuly", "Information", MessageBoxButtons.OK, MessageBoxIcon.Information);
buttonProcessXIC.Text = "Process XIC";
}
}
