public static void ExampleDigestion()
{
const string fastaFilePath = "Resources/yeast_uniprot_120226.fasta";
IProtease trypsin = Protease.GetProtease("Trypsin");
const int maxMissedCleavages = 3;
const int minPeptideLength = 5;
const int maxPeptideLength = 50;
List<double> masses = new List<double>();
Stopwatch watch = new Stopwatch();
watch.Start();
using (FastaReader reader = new FastaReader(fastaFilePath))
{
foreach (Protein protein in reader.ReadNextProtein())
{
foreach (Peptide peptide in protein.Digest(trypsin, maxMissedCleavages, minPeptideLength, maxPeptideLength))
{
masses.Add(peptide.MonoisotopicMass);
}
}
}
//Console.WriteLine("Average Peptide Mass = {0:F4}", masses.Average());
watch.Stop();
Console.WriteLine("Time elapsed: {0}", watch.Elapsed);
}
