/// <summary>
/// Configure and return the appropriate target filter
/// </summary>
/// <param name="tool"></param>
/// <param name="options"></param>
/// <returns></returns>
public static ITargetFilter Create(LcmsIdentificationTool tool, Options options)
{
ITargetFilter targetFilter = null;
switch (tool)
{
case LcmsIdentificationTool.MsgfPlus:
targetFilter = new MsgfPlusTargetFilter(options);
break;
case LcmsIdentificationTool.MZIdentML:
targetFilter = new MsgfPlusTargetFilter(options);
break;
case LcmsIdentificationTool.Sequest:
targetFilter = new SequestTargetFilter(options);
break;
case LcmsIdentificationTool.XTandem:
targetFilter = new XTandemTargetFilter(options);
break;
case LcmsIdentificationTool.MSAlign:
targetFilter = new MsAlignTargetFilter(options);
break;
}
return(targetFilter);
}
/// <summary>
/// Create an alignment filter
/// </summary>
/// <param name="tool">Format of input data</param>
/// <param name="options">Options</param>
/// <returns>Alignment filter</returns>
public static ITargetFilter Create(LcmsIdentificationTool tool, Options options)
{
ITargetFilter alignmentFilter = null;
switch (tool)
{
case LcmsIdentificationTool.MsgfPlus:
alignmentFilter = new MsgfPlusAlignmentFilter(options);
break;
case LcmsIdentificationTool.MZIdentML:
alignmentFilter = new MsgfPlusAlignmentFilter(options);
break;
case LcmsIdentificationTool.Sequest:
alignmentFilter = new SequestAlignmentFilter(options);
break;
case LcmsIdentificationTool.XTandem:
alignmentFilter = new XTandemAlignmentFilter(options);
break;
case LcmsIdentificationTool.MSAlign:
alignmentFilter = new MsAlignAlignmentFilter(options);
break;
}
return alignmentFilter;
}
/// <summary>
/// Constructor
/// </summary>
/// <param name="name">Name of dataset</param>
/// <param name="tool">Format of dataset</param>
/// <param name="evidences">Evidences in dataset</param>
public LcmsDataSet(string name, LcmsIdentificationTool tool, IEnumerable <Evidence> evidences)
{
PreviouslyAnalyzed = false;
Name = name;
Tool = tool;
Evidences = new List <Evidence>(evidences);
RegressionResult = new LinearRegressionResult();
}
/// <summary>
/// Constructor
/// </summary>
/// <param name="path"></param>
/// <param name="format"></param>
public AnalysisJobItem(string path, LcmsIdentificationTool format)
{
FileName = Path.GetFileName(path);
BaseFolder = Path.GetDirectoryName(path);
FilePath = path;
Format = format;
Title = FileName.Replace(FileName.Substring(FileName.LastIndexOf('_')), String.Empty);
}
public FileDialogFormatInfo(string title, string filter, LcmsIdentificationTool format)
{
Title = title;
Filter = filter;
Format = format;
}
