public void AddMissedCleavages()
{
if (this.maxMissedCleavages > 0)
{
var missedList = new List <DigestRangeLocation>();
for (int i = 0; i < this.peptideQue.Count; i++)
{
DigestRangeLocation loc = this.peptideQue[i];
for (int iMiss = 0; iMiss < this.maxMissedCleavages; iMiss++)
{
int j = i + 1 + iMiss;
if (j == this.peptideQue.Count)
{
break;
}
RangeLocation loc2 = this.peptideQue[j];
missedList.Add(new DigestRangeLocation(loc.Min, loc2.Max, iMiss + 1));
}
}
this.peptideQue.AddRange(missedList);
}
}
public void CreatePeptideFeature(DigestRangeLocation loc)
{
if (!this.sequence.Annotation.ContainsKey(PEPTIDE_FEATURE_TYPE))
{
this.sequence.Annotation[PEPTIDE_FEATURE_TYPE] = new List <DigestPeptideInfo>();
}
var peptides = (List <DigestPeptideInfo>) this.sequence.Annotation[PEPTIDE_FEATURE_TYPE];
var dpi = new DigestPeptideInfo();
dpi.ProteinName = this.sequence.Name;
dpi.PeptideSeq = this.sequence.SeqString.Substring(loc.Min - 1, loc.Max - loc.Min + 1);
dpi.PeptideLoc = new RangeLocation(loc);
dpi.MissCleavage = loc.MissCleavage;
peptides.Add(dpi);
}
