private bool IsValidAlleleCombination(string alleles, InvestigationMode cmpType)
{
if (cmpType == InvestigationMode.Zygosity || cmpType == InvestigationMode.Genotype)
{
//For the zygosity and genotype comparison modes only accept two characters
//separated by a slash.
if (alleles.Length != 3)
{
return(false);
}
if (alleles.Substring(1, 1) != "/")
{
return(false);
}
}
if (cmpType == InvestigationMode.Genotype)
{
//For the genotype comparison mode, also require A, C, G or T alleles.
if (alleles.Substring(0, 1).ToUpper() != "A" &&
alleles.Substring(0, 1).ToUpper() != "C" &&
alleles.Substring(0, 1).ToUpper() != "G" &&
alleles.Substring(0, 1).ToUpper() != "T")
{
return(false);
}
if (alleles.Substring(2, 1).ToUpper() != "A" &&
alleles.Substring(2, 1).ToUpper() != "C" &&
alleles.Substring(2, 1).ToUpper() != "G" &&
alleles.Substring(2, 1).ToUpper() != "T")
{
return(false);
}
}
return(true);
}
public void Load(DataTable results, InvestigationMode cmpType)
{
string tempItem, tempExp, tempAlleles;
GenotypeDictionary tempDuplFailures, tempGenotypeDict, tempDuplTestDict;
GenotypeCollection tempNoResults;
GenotypeResultCollection tempInvalidAlleles;
MyTotalGenotypesCount = results.Rows.Count;
//Initiate dictionaries and collections.
tempGenotypeDict = new GenotypeDictionary();
tempDuplTestDict = new GenotypeDictionary();
tempDuplFailures = new GenotypeDictionary();
tempInvalidAlleles = new GenotypeResultCollection();
tempNoResults = new GenotypeCollection();
//First perform duplicate test.
foreach (DataRow row in results.Rows)
{
//Read values.
tempItem = row["Item"].ToString();
tempExp = row["Experiment"].ToString();
tempAlleles = row["Alleles"].ToString();
if (tempAlleles.ToUpper() != MyMissingValueCode.ToUpper())
{
if (this.IsValidAlleleCombination(tempAlleles, cmpType))
{
if (tempDuplTestDict.Contains(tempItem, tempExp))
{
//This key already exists, check if the alleles are different.
if (tempDuplTestDict[tempItem, tempExp].ToUpper() != tempAlleles.ToUpper())
{
//Remember this key as having a duplicate failure.
if (!tempDuplFailures.Contains(tempItem, tempExp))
{
tempDuplFailures.Add(tempItem, tempExp, "");
}
}
}
else
{
//Did not exist already.
tempDuplTestDict.Add(tempItem, tempExp, tempAlleles);
}
}
}
}
//Now go through the values again to avoid those with duplicate failures.
foreach (DataRow row in results.Rows)
{
//Read values.
tempItem = row["Item"].ToString();
tempExp = row["Experiment"].ToString();
tempAlleles = row["Alleles"].ToString();
if (tempAlleles.ToUpper() == MyMissingValueCode.ToUpper())
{
//Skipped because of no result.
tempNoResults.Add(tempItem, tempExp);
}
else if (!this.IsValidAlleleCombination(tempAlleles, cmpType))
{
//Skipped because invalid alleles.
tempInvalidAlleles.Add(tempItem, tempExp, tempAlleles);
}
else if (!tempDuplFailures.Contains(tempItem, tempExp) && !tempGenotypeDict.Contains(tempItem, tempExp))
{
//Neither a duplicate failure nor already existing, go ahead and add.
tempGenotypeDict.Add(tempItem, tempExp, tempAlleles);
}
}
MyValidGenotypes = tempGenotypeDict;
MyDuplFailures = tempDuplFailures;
MyNoResults = tempNoResults;
MyInvalidAlleles = tempInvalidAlleles;
}
