/// <summary>
/// For MSGF
/// Score=MS-GF:RawScore
/// ExpectValue=MS-GF:SpecEValue
///
/// MS-GF:RawScore: MS-GF+ raw score of the peptide-spectrum match
/// MS-GF:DeNovoScore: the score of the optimal scoring peptide for the spectrum (not necessary in the database) (MS-GF:RawScore <= MS-GF:DeNovoScore)
/// MS-GF:SpecEValue: spectral E-value (spectrum level E-value) of the peptide-spectrum match - the lower the better
/// MS-GF:EValue: database level E-value (expected number of peptides in a random database having equal or better scores than the PSM score) - the lower the better
/// MS-GF:QValue
/// PSM-level Q-value estimated using the target-decoy approach.
/// MS-GF:QValue is computed solely based on MS-GF:SpecEValue.
/// </summary>
/// <param name="spectrum"></param>
/// <param name="cvParams"></param>
protected override void ParseScore(Summary.IdentifiedSpectrum spectrum, Dictionary <string, string> cvParams)
{
string score;
//MS-GF:RawScore
if (cvParams.TryGetValue("MS:1002049", out score))
{
spectrum.Score = double.Parse(score);
}
//MS-GF:DeNovoScore
if (cvParams.TryGetValue("MS:1002050", out score))
{
spectrum.SpScore = double.Parse(score);
}
//MS-GF:SpecEValue
if (cvParams.TryGetValue("MS:1002052", out score))
{
spectrum.ExpectValue = double.Parse(score);
}
//MS-GF:EValue
if (cvParams.TryGetValue("MS:1002053", out score))
{
spectrum.Probability = double.Parse(score);
}
if (cvParams.TryGetValue("MS:1002054", out score))
{
spectrum.QValue = double.Parse(score);
}
}
/// <summary>
/// For MyriMatch
/// Score=MyriMatch:MVH
/// SpScore=MyriMatch:mzFidelity
/// </summary>
/// <param name="spectrum"></param>
/// <param name="cvParams"></param>
protected override void ParseScore(Summary.IdentifiedSpectrum spectrum, Dictionary <string, string> cvParams)
{
string score;
if (cvParams.TryGetValue("MS:1001589", out score))
{
spectrum.Score = double.Parse(score);
}
if (cvParams.TryGetValue("MS:1001590", out score))
{
spectrum.SpScore = double.Parse(score);
}
}
