public static Gene addGene(string geneName, string chrom)
{
List <String> geneStrings = null;
Gene toReturn = null;
try
{
geneStrings = UcscDAL.getGene(geneName, chrom);
if (geneStrings != null)
{
char strand = Convert.ToChar(geneStrings[0]);
int cdsStart = int.Parse(geneStrings[1]);
int cdsEnd = int.Parse(geneStrings[2]);
int[] exonStars = exonStringToIntArray(geneStrings[4]);
int[] exonEnds = exonStringToIntArray(geneStrings[5]);
toReturn = new Gene(geneName, chrom, strand, cdsStart, cdsEnd, exonStars, exonEnds);
string tempExonStarts = exonIntArrayToString(toReturn.ExonStarts);
string tempExonEnds = exonIntArrayToString(toReturn.ExonEnds);
LocalDbDAL.addGene(geneName, chrom, strand, tempExonStarts, tempExonEnds);
}
return(toReturn);
}
catch (Exception)
{
throw;
}
}
public static List <String> getCosmicDetails(string chromNum, int position, char refNuc, char varNuc)
{
try
{
return(UcscDAL.getCosmicDetails(chromNum, position, refNuc, varNuc));
}
catch (Exception)
{
throw;
}
}