private void SetSaFields(SupplementaryPositionCreator saCreator, string newAltAllele)
{
var annotation = new ExacAnnotation
{
ExacCoverage = Coverage,
ExacAllAn = AllAlleleNumber,
ExacAfrAn = AfrAlleleNumber,
ExacAmrAn = AmrAlleleNumber,
ExacEasAn = EasAlleleNumber,
ExacFinAn = FinAlleleNumber,
ExacNfeAn = NfeAlleleNumber,
ExacOthAn = OthAlleleNumber,
ExacSasAn = SasAlleleNumber,
ExacAllAc = AllAlleleCount,
ExacAfrAc = AfrAlleleCount,
ExacAmrAc = AmrAlleleCount,
ExacEasAc = EasAlleleCount,
ExacFinAc = FinAlleleCount,
ExacNfeAc = NfeAlleleCount,
ExacOthAc = OthAlleleCount,
ExacSasAc = SasAlleleCount
};
saCreator.AddExternalDataToAsa(DataSourceCommon.DataSource.Exac, newAltAllele, annotation);
}
private void SetSaFields(SupplementaryPositionCreator saCreator, string newAltAllele)
{
var annotation = new EvsAnnotation
{
EvsAll = AllFreq,
EvsAfr = AfrFreq,
EvsEur = EurFreq,
EvsCoverage = Coverage,
NumEvsSamples = NumSamples
};
saCreator.AddExternalDataToAsa(DataSourceCommon.DataSource.Evs, newAltAllele, annotation);
}
private void SetSaFields(SupplementaryPositionCreator saCreator, string newAltAllele)
{
if (!RefAlleleFreq.Equals(double.MinValue))
{
saCreator.RefAllele = ReferenceAllele;
saCreator.RefAlleleFreq = RefAlleleFreq;
}
//var sa = saCreator.SaPosition;
//set asa field
var annotation = new DbSnpAnnotation
{
DbSnp = new List <long> {
RsId
},
AltAlleleFreq = AltAlleleFreq
};
saCreator.AddExternalDataToAsa(DataSourceCommon.DataSource.DbSnp, newAltAllele, annotation);
}
private void SetSaFields(SupplementaryPositionCreator saCreator, string altAllele)
{
var annotation = new OneKGenAnnotation
{
AncestralAllele = AncestralAllele,
OneKgAllAn = AllAlleleNumber,
OneKgAfrAn = AfrAlleleNumber,
OneKgAmrAn = AmrAlleleNumber,
OneKgEurAn = EurAlleleNumber,
OneKgEasAn = EasAlleleNumber,
OneKgSasAn = SasAlleleNumber,
OneKgAllAc = AllAlleleCount,
OneKgAfrAc = AfrAlleleCount,
OneKgAmrAc = AmrAlleleCount,
OneKgEurAc = EurAlleleCount,
OneKgEasAc = EasAlleleCount,
OneKgSasAc = SasAlleleCount
};
saCreator.AddExternalDataToAsa(DataSourceCommon.DataSource.OneKg, altAllele, annotation);
}