public void TestGetModifiedAminiacids() { var actual = ModificationUtils.GetModifiedAminiacids("^SEETAY*FVWLGK@"); Assert.AreEqual(2, actual.Count); Assert.AreEqual('Y', actual[5]); Assert.AreEqual('K', actual[11]); }
public void TestParseProbability() { var probs = ModificationUtils.ParseProbability("S(1): 0.0; S(3): 0.4; S(4): 99.6"); Assert.AreEqual(3, probs.Count); Assert.IsTrue(probs.All(l => l.Aminoacid.Equals("S"))); Assert.AreEqual(4, probs[2].Site); Assert.AreEqual(99.6, probs[2].Probability); }
public void TestFilterSiteProbability() { var actual = ModificationUtils.FilterSiteProbability("SQSS*PR", "S(1): 0.0; S(3): 0.4; S(4): 99.6"); Assert.AreEqual("S(4): 99.6", actual); actual = ModificationUtils.FilterSiteProbability("^SQSS*PR", "S(1): 0.0; S(3): 0.4; S(4): 99.6"); Assert.AreEqual("S(4): 99.6", actual); actual = ModificationUtils.FilterSiteProbability("^SRK@T*SSVSSSPST*PT*QVT*K@", "Too many isoforms"); Assert.AreEqual("K(3): 0; T(4): 0; T(13): 0; T(15): 0; T(18): 0; K(19): 0", actual); }
public void TestParseFromOutFileLine() { Dictionary <char, double> map = ModificationUtils.ParseFromOutFileLine( "(STY* +79.96633) (M# +15.99492) (ST@ -18.00000) C=160.16523 Enzyme:Trypsin(KR) (1)"); Assert.AreEqual(4, map.Count); Assert.AreEqual(79.96633, map['*'], 0.00001); Assert.AreEqual(15.99492, map['#'], 0.00001); Assert.AreEqual(-18.00000, map['@'], 0.00001); Assert.AreEqual(160.16523, map['C'], 0.00001); }
public bool Validate(string sequence) { if (sequence == null || sequence.Length == 0) { return(false); } int specialAminoAcidCount = 0; int modifiedAminoAcidCount = 0; int i = 0; while (i < sequence.Length) { if (aminoAcids.IndexOf(sequence[i]) < 0) { i++; continue; } specialAminoAcidCount++; i++; if (i < sequence.Length) { if (ModificationUtils.IsModification(sequence[i])) { modifiedAminoAcidCount++; i++; } } } if (0 == specialAminoAcidCount) { return(false); } return(0 == modifiedAminoAcidCount || modifiedAminoAcidCount == specialAminoAcidCount); }
public void TestIsModification() { Assert.IsTrue(ModificationUtils.IsModification('*')); Assert.IsTrue(ModificationUtils.IsModification('p')); Assert.IsFalse(ModificationUtils.IsModification('A')); }