public static List <PersonLevel1> readPersonLevel5To6(List <Level1> lp6, List <PersonLevel1> lp, List <PersonLevel1> lp2, bool ifGen)
{
List <PersonLevel1> listPerson1 = new List <PersonLevel1>()
{
};
double sum = 0.00, mean = 0.00;
double bigSum = 0.00, stdDev;
int index = 0;
var backgroundColor = "antiquewhite";
lp6[0].ListPerson.ForEach(d => {
if (index % 2 != 0)
{
backgroundColor = "white";
}
else
{
backgroundColor = "antiquewhite";
}
var listPersonto6Mut = lp.First(l => l.Name.Equals(d.Name));
var listPersonto6Wt = lp2.First(l => l.Name.Equals(d.Name));
sum += listPersonto6Mut.TotalCoverage != null && listPersonto6Wt.TotalCoverage != null &&
listPersonto6Mut.TotalCoverage != "0" && listPersonto6Wt.TotalCoverage != "0"
? (float.Parse(listPersonto6Mut.TotalCoverage) / float.Parse(listPersonto6Wt.TotalCoverage)): 0;
listPerson1.Add(
new PersonLevel1
{
Name = listPersonto6Mut.Name,
Genotype = "-----",
AlleleCoverage = listPersonto6Mut.TotalCoverage != null && listPersonto6Wt.TotalCoverage != null &&
listPersonto6Mut.TotalCoverage != "0" && listPersonto6Wt.TotalCoverage != "0"
? (float.Parse(listPersonto6Mut.TotalCoverage) / float.Parse(listPersonto6Wt.TotalCoverage)).ToString() : "0",
TotalCoverage = "-----",
Color = new ColorLevel1 {
Genotype = backgroundColor, AlleleCoverage = backgroundColor, TotalCoverage = backgroundColor
}
});
index++;
});
mean = sum / listPerson1.Count;
for (int i = 0; i < listPerson1.Count; i++)
{
bigSum += Math.Pow(Double.Parse(listPerson1[i].AlleleCoverage) - mean, 2);
}
stdDev = Math.Sqrt(bigSum / (listPerson1.Count - 1));
foreach (var value in listPerson1)
{
//value.TotalCoverage = (double.Parse(value.AlleleCoverage) - mean / stdDev).ToString();
value.TotalCoverage = ((double.Parse(value.AlleleCoverage) - mean) / (stdDev / Math.Sqrt(listPerson1.Count))).ToString();
value.Genotype = ifGen == true?Double.Parse(value.AlleleCoverage) < 0.1 ? "0/0" : "0/1" : Double.Parse(value.TotalCoverage) < 10 ? "0/0" : "0/1";
//value.Genotype = ifGen==true ? Double.Parse(value.TotalCoverage)<0 ? "0/0" : "0/1" : Double.Parse (value.TotalCoverage) < 10 ? "0/0" : "0/1";
// value.Color.Genotype = value.Genotype.Equals("0/1") ? "" : "";
}
foreach (var person in listPerson1)
{
CalculationLevel1.WhichColor(person, 1);
}
return(listPerson1);
}
public void IfNeedColorListPerson(Level3 mutation)
{
CalculationLevel1.SetColorInListPerson(mutation.ListPerson, 1);
}
// הוספת השינויים האותומטיים לכל אדם
private List <Level0> InsertCalculationForPerson1(string barcodeCantrige)
{
var duplicates = ListLevel1
.GroupBy(i => i.DyDis + i.DyMut + i.MutID)
.Where(g => g.Count() > 1)
// .Select(g => g.Key);
.Select(y => new { Element = y.Key, Counter = y.Count() }).ToList();
//duplicates.ToList().ForEach(dup =>
//{
// if (dup.Element.Equals(myDicPink["3"][0]+ myDicPink["3"][1]+ myDicPink["3"][2]) && dup.Counter <= 2 ||
// dup.Element.Equals(myDicPink["2"][0]+ myDicPink["2"][1]+ myDicPink["2"][2]) && dup.Counter <= 2 ||
// dup.Element.Equals(myDicPink["1"][0]+ myDicPink["1"][1]+ myDicPink["1"][2]) && dup.Counter <= 4 )
// { }
// else
// {
// ListLevel1.ForEach(mutshion =>
// {
// if ((mutshion.DyDis+mutshion.DyMut+mutshion.MutID).Equals(dup.Element) && mutshion.Ref.Equals(mutshion.GenotypeRef))
// {
// mutshion.ListPerson.ForEach(person =>
// {
// if (person.Genotype.Equals("0/0") || person.Genotype.Equals("./."))
// {
// var p1 = ListLevel1.Find(mutshion2 => ((mutshion2.DyDis + mutshion2.DyMut + mutshion2.MutID).Equals(dup.Element) && !mutshion2.Ref.Equals(mutshion2.GenotypeRef)))
// .ListPerson.Find(p => p.Name.Equals(person.Name));
// person = new PersonLevel1() {Name=p1.Name,Genotype=p1.Genotype,AlleleCoverage=p1.AlleleCoverage,TotalCoverage=p1.TotalCoverage,Color=p1.Color};
// }
// });
// }
// });
// };
//});
for (int i = 0; i < duplicates.Count; i++)
{
if (duplicates[i].Element.Equals(myDicPink["3"][0] + myDicPink["3"][1] + myDicPink["3"][2]) && duplicates[i].Counter <= 2 ||
duplicates[i].Element.Equals(myDicPink["2"][0] + myDicPink["2"][1] + myDicPink["2"][2]) && duplicates[i].Counter <= 2 ||
duplicates[i].Element.Equals(myDicPink["1"][0] + myDicPink["1"][1] + myDicPink["1"][2]) && duplicates[i].Counter <= 4)
{
}
else
{
var m1 = ListLevel1.Find(mutshion2 => ((mutshion2.DyDis + mutshion2.DyMut + mutshion2.MutID).Equals(duplicates[i].Element) && mutshion2.Ref.Equals(mutshion2.GenotypeRef)));
m1.ColorDyName = ColorMutation.Orange.ToString();
var m2 = ListLevel1.FindAll(mutshion2 => ((mutshion2.DyDis + mutshion2.DyMut + mutshion2.MutID).Equals(duplicates[i].Element) && !mutshion2.Ref.Equals(mutshion2.GenotypeRef)));
for (int i2 = 0; i2 < m2.Count; i2++)
{
for (int y = 0; y < m1.ListPerson.Count; y++)
{
if (m1.ListPerson[y].Genotype.Equals("0/0") || m1.ListPerson[y].Genotype.Equals("./."))
{
var p2 = m2[i2].ListPerson.Find(p => p.Name.Equals(m1.ListPerson[y].Name));
m1.ListPerson[y] = new PersonLevel1()
{
Name = p2.Name, Genotype = p2.Genotype, AlleleCoverage = p2.AlleleCoverage, TotalCoverage = p2.TotalCoverage, Color = p2.Color
};
}
}
ListLevel1.Remove(m2[i2]);
}
}
}
foreach (var person in ListLevel1)
{
CalculationLevel1 c1 = new CalculationLevel1(person)
{
};
//Level1 p = person;
//Thread thread1 = new Thread(() => new CalculationLevel1(p));
//thread1.Start();
}
//foreach (var sample in ListLevel1[0].ListPerson)
//{
// if (ConnectSqlLevel0.SelectIfSampleinLevel0(barcodeCantrige, sample.Name) == null)//?? איך יודעים איזה פלטה??
// { throw new Exception("the : " + sample.Name + "not in step 1"); }
//}
foreach (var item in myDicPink)
{
int ifPink = 0;
var listPink = ListLevel1.FindAll(f => f.ColorDyName.Equals(ColorMutation.Pink.ToString()) && f.DyDis.Equals(item.Value[0]) && f.DyMut.Equals(item.Value[1]) && f.MutID.Equals(item.Value[2]));
listPink.ForEach(o => { if (++ifPink < listPink.Count)
{
ListLevel1.Remove(listPink[ifPink]);
}
});
}
return(ConnectSqlLevel0.SelectIfSampleinLevel0(barcodeCantrige, ListLevel1[0].ListPerson));
}