public static object CreateView(string rawName, string scan, IConSol consol)
{
if (options == null)
{
options = DotNetMHC.MHCSearcher.CreateOptions(new string[] { "" }, "", 15, 0.05, consol);
}
//Get file path
//Get Spectrum
Numerics.SequenceStore store = Numerics.SequenceStore.GetStore(0.05);
string rawFile = Numerics.SourceStore.GetDictionary()[rawName];
DotNetMHC.Data.Spectrum spectrum = DotNetMHC.RawExtractor.LoadSpectrum(rawFile, scan, options);
List <Data.PeptideView> peptides = store.GetPeptides(spectrum, options);
double bestScore = 0.0;
Data.PeptideView bestPeptide = peptides[0];
foreach (Data.PeptideView peptide in peptides)
{
if (peptide.SpectrumScore > bestScore)
{
bestScore = peptide.SpectrumScore;
bestPeptide = peptide;
}
}
return(new Data.SpecView(spectrum, peptides, bestPeptide));
}
public SpecView(Spectrum spectrum, List <PeptideView> peptides, PeptideView peptide)
{
Peptides = peptides.ToArray();
Source = spectrum.Source;
ScanNumber = spectrum.ScanNumber;
RetentionTimeInMin = spectrum.RetentionTimeInMin;
PrecursorMZ = spectrum.PrecursorMZ;
PrecursorIntensity = spectrum.PrecursorIntensity;
PrecursorCharge = spectrum.PrecursorCharge;
PrecursorMass = spectrum.PrecursorMass;
Peaks = spectrum.Peaks.ToArray();
InjectionTime = spectrum.InjectionTime;
Ms1InjectionTime = spectrum.Ms1InjectionTime;
MaxPeakIntensity = spectrum.MaxPeakIntensity;
AveragePeakIntensity = spectrum.AveragePeakIntensity;
SumPeakIntensity = spectrum.SumPeakIntensity;
}
