protected static SpectralAnalysis MatchDatasets(SpectralComparison comparerType,
ISpectraProvider readerX,
ISpectraProvider readerY,
SpectralOptions options,
AlignmentDataset datasetX,
AlignmentDataset datasetY,
List <string> names)
{
var peptideReader = PeptideReaderFactory.CreateReader(SequenceFileType.MSGF);
var finder = new SpectralAnchorPointFinder();
var validator = new SpectralAnchorPointValidator();
var comparer = SpectralComparerFactory.CreateSpectraComparer(comparerType);
var filter = SpectrumFilterFactory.CreateFilter(SpectraFilters.TopPercent);
var matches = finder.FindAnchorPoints(readerX,
readerY,
comparer,
filter,
options);
var peptidesX = peptideReader.Read(datasetX.PeptideFile);
var peptidesY = peptideReader.Read(datasetY.PeptideFile);
validator.ValidateMatches(matches,
peptidesX,
peptidesY,
options);
var analysis = new SpectralAnalysis
{
DatasetNames = names,
Matches = matches,
Options = options
};
return(analysis);
}
protected static SpectralAnalysis MatchDatasets(SpectralComparison comparerType,
ISpectraProvider readerX,
ISpectraProvider readerY,
SpectralOptions options,
AlignmentDataset datasetX,
AlignmentDataset datasetY,
List<string> names)
{
var peptideReader = PeptideReaderFactory.CreateReader(SequenceFileType.MSGF);
var finder = new SpectralAnchorPointFinder();
var validator = new SpectralAnchorPointValidator();
var comparer = SpectralComparerFactory.CreateSpectraComparer(comparerType);
var filter = SpectrumFilterFactory.CreateFilter(SpectraFilters.TopPercent);
var matches = finder.FindAnchorPoints(readerX,
readerY,
comparer,
filter,
options);
var peptidesX = peptideReader.Read(datasetX.PeptideFile);
var peptidesY = peptideReader.Read(datasetY.PeptideFile);
validator.ValidateMatches(matches,
peptidesX,
peptidesY,
options);
var analysis = new SpectralAnalysis
{
DatasetNames = names,
Matches = matches,
Options = options
};
return analysis;
}
