void DisplayPathways(object sender, EventArgs e)
{
if (LocusID == -1) return;
FormForKeggGene KeggWin = new FormForKeggGene();
KEGG ServKegg = new KEGG();
string[] intersection_gene_pathways = new string[1];
intersection_gene_pathways[0] = "hsa:" + LocusID;
string[] Pathways = ServKegg.get_pathways_by_genes(intersection_gene_pathways);
if ((Pathways == null) || (Pathways.Length == 0))
{
MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
return;
}
string GenInfo = ServKegg.bget(intersection_gene_pathways[0]);
// FormForPathway PathwaysGenes = new FormForPathway();
KeggWin.richTextBox.Text = GenInfo;
KeggWin.Text = "Gene Infos";
//PathwaysGenes.Show();
ListP = new FormForPathway();
ListP.listBoxPathways.DataSource = Pathways;
ListP.Text = this.Name;
ListP.Show();
//foreach (string item in Pathways)
//{
// string PathwayInfo = ServKegg.bget(item);
// FormPathwaysGenes PathwaysGenes = new FormPathwaysGenes();
// PathwaysGenes.richTextBox1.Text = PathwayInfo;
// PathwaysGenes.Text = "Pathways Infos";
// PathwaysGenes.Show();
//}
string[] fg_list = { "black" };
string[] bg_list = { "orange" };
// string[] intersection_gene_pathways = new string[1];
// intersection_gene_pathways[0] = "hsa:" + LocusID;
string pathway_map_html = "";
// KEGG ServKegg = new KEGG();
pathway_map_html = ServKegg.get_html_of_colored_pathway_by_objects((string)(ListP.listBoxPathways.SelectedItem), intersection_gene_pathways, fg_list, bg_list);
// FormForKegg KeggWin = new FormForKegg();
if (pathway_map_html.Length == 0) return;
//
//KeggWin.Show();
ListP.listBoxPathways.MouseDoubleClick += new MouseEventHandler(listBox1_MouseDoubleClick);
KeggWin.webBrowser.Navigate(pathway_map_html);
KeggWin.Show();
}
private FormForPie PathWayAnalysis(int Class)
{
//int Idx = 0;
int NumberOfPlates = CompleteScreening.ListPlatesActive.Count;
KEGG ServKegg = new KEGG();
List<cPathWay> ListPathway = new List<cPathWay>();
// loop on all the plate
for (int PlateIdx = 0; PlateIdx < NumberOfPlates; PlateIdx++)
{
cPlate CurrentPlateToProcess = CompleteScreening.ListPlatesActive.GetPlate(CompleteScreening.ListPlatesActive[PlateIdx].Name);
for (int IdxValue = 0; IdxValue < CompleteScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < CompleteScreening.Rows; IdxValue0++)
{
cWell TmpWell = CurrentPlateToProcess.GetWell(IdxValue, IdxValue0, true);
if ((TmpWell == null) || (TmpWell.GetClass() != Class) || (TmpWell.LocusID == -1)) continue;
string[] intersection_gene_pathways = new string[1];
intersection_gene_pathways[0] = "hsa:" + TmpWell.LocusID;
string[] Pathways = ServKegg.get_pathways_by_genes(intersection_gene_pathways);
if ((Pathways == null) || (Pathways.Length == 0)) continue;
for (int Idx = 0; Idx < Pathways.Length; Idx++)
{
// string PathName = Pathways[Idx].Remove(0, 8);
string GenInfo = ServKegg.bget(Pathways[Idx]);
string[] Genes = GenInfo.Split(new char[] { '\n' });
string PathName = "";
foreach (string item in Genes)
{
string[] fre = item.Split(' ');
string[] STRsection = fre[0].Split('_');
if (STRsection[0] == "NAME")
{
for (int i = 1; i < fre.Length; i++)
{
if (fre[i] == "") continue;
PathName += fre[i] + " ";
}
break;
}
}
if (ListPathway.Count == 0)
{
cPathWay CurrPath = new cPathWay();
CurrPath.Name = PathName;
CurrPath.Occurence = 1;
ListPathway.Add(CurrPath);
continue;
}
bool DidIt = false;
for (int i = 0; i < ListPathway.Count; i++)
{
if (PathName == ListPathway[i].Name)
{
ListPathway[i].Occurence++;
DidIt = true;
break;
}
}
if (DidIt == false)
{
cPathWay CurrPath1 = new cPathWay();
CurrPath1.Name = PathName;
CurrPath1.Occurence = 1;
ListPathway.Add(CurrPath1);
}
}
}
}
// now draw the pie
if (ListPathway.Count == 0)
{
MessageBox.Show("No pathway identified !", "Information", MessageBoxButtons.OK, MessageBoxIcon.Information);
return null;
}
FormForPie Pie = new FormForPie();
Series CurrentSeries = Pie.chartForPie.Series[0];
// loop on all the plate
int MaxOccurence = int.MinValue;
int MaxIdx = 0;
int TotalOcurrence = 0;
for (int Idx = 0; Idx < ListPathway.Count; Idx++)
{
if (ListPathway[Idx].Occurence > MaxOccurence)
{
MaxOccurence = ListPathway[Idx].Occurence;
MaxIdx = Idx;
}
TotalOcurrence += ListPathway[Idx].Occurence;
}
//CurrentSeries.CustomProperties = "PieLabelStyle=Outside";
for (int Idx = 0; Idx < ListPathway.Count; Idx++)
{
CurrentSeries.Points.Add(ListPathway[Idx].Occurence);
CurrentSeries.Points[Idx].Label = String.Format("{0:0.###}", ((100.0 * ListPathway[Idx].Occurence) / TotalOcurrence)) + " %";
CurrentSeries.Points[Idx].LegendText = ListPathway[Idx].Name;
CurrentSeries.Points[Idx].ToolTip = ListPathway[Idx].Name;
if (Idx == MaxIdx)
CurrentSeries.Points[Idx].SetCustomProperty("Exploded", "True");
}
return Pie;
}