| public Evaluate ( string truthSetPath, string cnvCallsPath, string excludedBed, string outputPath, string ROIBedPath, double heterogeneityFraction ) : void | ||
| truthSetPath | string | |
| cnvCallsPath | string | |
| excludedBed | string | |
| outputPath | string | |
| ROIBedPath | string | |
| heterogeneityFraction | double | |
| return | void | |
static void Main(string[] args)
{
if (args.Length < 4)
{
Console.WriteLine("EvaluateCNV {0}",
System.Reflection.Assembly.GetExecutingAssembly().GetName().Version);
Console.WriteLine("For more info see: http://confluence.illumina.com/display/BIOINFO/EvaluateCNV");
Console.WriteLine();
Console.WriteLine("Usage info:");
Console.WriteLine("EvaluateCNV $TruthSetPath $CNV.vcf $ExcludedRegionsBed $OutputPath [$RegionOfInterestBed]");
return;
}
CNVChecker checker = new CNVChecker();
string ROIBed = null;
double heterogeneityFraction = 1;
if (args.Length > 4)
{
ROIBed = args[4];
}
if (args.Length > 5)
{
heterogeneityFraction = double.Parse(args[5]);
}
checker.Evaluate(args[0], args[1], args[2], args[3], ROIBed, heterogeneityFraction);
}
private static int MainHelper(string[] args)
{
EvaluateCnvOptionsParser optionsParser = new EvaluateCnvOptionsParser();
if (args.Length < 4)
{
ShowHelp(optionsParser, Console.Error);
return(1);
}
var parsingResult = optionsParser.Parse(args.Skip(4));
if (!parsingResult.Success)
{
Console.Error.WriteLine(parsingResult.ErrorMessage);
ShowHelp(optionsParser, Console.Error);
return(1);
}
var options = parsingResult.Result;
if (options.Help)
{
ShowHelp(optionsParser, Console.Out);
return(0);
}
CNVChecker.Evaluate(args[0], args[1], args[2], args[3], options);
return(0);
}
static void Main(string[] args)
{
if (args.Length < 4)
{
Console.WriteLine("EvaluateCNV {0}",
System.Reflection.Assembly.GetExecutingAssembly().GetName().Version);
Console.WriteLine("For more info see: http://confluence.illumina.com/display/BIOINFO/EvaluateCNV");
Console.WriteLine();
Console.WriteLine("Usage info:");
Console.WriteLine("EvaluateCNV $TruthSetPath $CNV.vcf $ExcludedRegionsBed $OutputPath [$RegionOfInterestBed]");
return;
}
CNVChecker checker = new CNVChecker();
string ROIBed = null;
if (args.Length > 4) ROIBed = args[4];
checker.Evaluate(args[0], args[1], args[2], args[3], ROIBed);
}
