public void InitializeSet() { RunQuery(delegate { var speciesList = SpeciesList; wstate.speciesList = speciesList.Select(s=>s.compactName).ToArray(); using (var strdb = new StringDatabaseSearch()) { wstate.set = PartList.BuildInteractionSet(wstate.partList.parts.Where(p => p.enabled)); foreach (Protein prot in wstate.set.proteins.Values) if (prot.stringID == 0) strdb.UpdateProtein(prot); } Invoke(new Action(delegate { comboSpecies.Items.AddRange(speciesList); comboSpecies.SelectedIndex = Array.IndexOf(speciesList, speciesList.FirstOrDefault(s => s.speciesId == 83333)); foreach (Protein prot in wstate.set.proteins.Values) treeView.Nodes.Add(CreateProteinNode(prot)); treeView.ExpandAll(); })); }); }
private void buttonMapInteractions_Click(object sender, EventArgs e) { var species = (StringDatabaseSearch.dbSpecies)comboSpecies.SelectedItem; int speciesID = species.speciesId; RunQuery(delegate { NativeExtend(); List<Protein> natives = new List<Protein>(); foreach (Protein p in wstate.set.proteins.Values) if (!p.fromHomolog) natives.Add(p); using (StringDatabaseSearch strdb = new StringDatabaseSearch()) { strdb.ExtendBestHomologs(wstate.set, natives, speciesID, 0, TreeUpdateLogCallback); } }); }
private void NativeExtend() { using (StringDatabaseSearch strdb = new StringDatabaseSearch()) { strdb.ExtendInteractions(wstate.set, wstate.set.proteins.Values.Where(p => !p.fromHomolog).ToArray(), MinInteractionScore, true, TreeUpdateLogCallback); // Find the interactions between the newly added nodes // strdb.ExtendInteractions(wstate.set, wstate.set.proteins.Values.Where(p => !p.fromHomolog).ToArray(), // MinInteractionScore, false, TreeUpdateLogCallback); } }
private void buttonLocalExtend_Click(object sender, EventArgs e) { RunQuery(delegate { using (StringDatabaseSearch strdb = new StringDatabaseSearch()) { strdb.ExtendInteractions(wstate.set, wstate.set.proteins.Values.Where(p => p.fromHomolog), MinInteractionScore, true, TreeUpdateLogCallback); } }); }