public static ModificationSites Set(this ModificationSites sites, AminoAcid aminoacid)
{
if(aminoacid != null)
sites |= aminoacid.Site;
return sites;
}
public static ModificationSites Set(this ModificationSites sites, char aminoacid)
{
AminoAcid aa;
if (AminoAcid.TryGetResidue(aminoacid, out aa))
{
sites |= aa.Site;
}
return(sites);
}
public Peptide(string sequence, AminoAcidPolymer parent, int startResidue)
: base(sequence)
{
Parent = parent;
StartResidue = startResidue;
EndResidue = startResidue + Length - 1;
if (parent != null)
{
if (StartResidue > 0)
{
PreviousAminoAcid = parent.AminoAcids[StartResidue - 1];
}
if (EndResidue < parent.Length - 1)
{
NextAminoAcid = parent.AminoAcids[EndResidue + 1];
}
}
}
private static void AddResidueToDictionary(AminoAcid residue)
{
Residues.Add(residue.Letter.ToString(CultureInfo.InvariantCulture), residue);
Residues.Add(residue.Name, residue);
Residues.Add(residue.Symbol, residue);
ResiduesByLetter[residue.Letter] = residue;
ResiduesByLetter[Char.ToLower(residue.Letter)] = residue;
}
public static bool TryGetResidue(string symbol, out AminoAcid residue)
{
return Residues.TryGetValue(symbol, out residue);
}
public static bool TryGetResidue(char letter, out AminoAcid residue)
{
residue = null;
if (letter > 'z' || letter < 0)
return false;
residue = ResiduesByLetter[letter];
return residue != null;
}
public static AminoAcid AddResidue(string name, char oneLetterAbbreviation, string threeLetterAbbreviation, string chemicalFormula, ModificationSites site)
{
var residue = new AminoAcid(name, oneLetterAbbreviation, threeLetterAbbreviation, chemicalFormula, site);
AddResidueToDictionary(residue);
return residue;
}
public static bool TryGetResidue(string symbol, out AminoAcid residue)
{
return(Residues.TryGetValue(symbol, out residue));
}