private void Calculate(StreamWriter sw, string title, Func <IsobaricItem, double> numerator, Func <IsobaricItem, double> denominator, IEnumerable <IsobaricItem> values)
{
List <double> ratios = new List <double>();
foreach (IsobaricItem m in values)
{
double dNumerator = numerator(m);
double dDenominator = denominator(m);
if (dNumerator == ITraqConsts.NULL_INTENSITY || dDenominator == ITraqConsts.NULL_INTENSITY)
{
continue;
}
ratios.Add(Math.Log(dNumerator / dDenominator));
}
QuantificationUtils.RatioStatistic(sw, title, ratios, values.Count());
}
private void DoStatistic(StreamWriter sw, List <IsobaricIndex> funcs, IIdentifiedResult ir)
{
sw.WriteLine("Dataset\tChannel\tMean[log2(Ratio)]\tStandardDeviation[log2(Ratio)]\tRatio\t95%\t99%\t99.9%\tTotalCount\tValidCount\tP<0.05\tP<0.01\tp<0.001");
var dsNames = option.DatasetMap.Keys.OrderBy(m => m).ToList();
foreach (var dsName in dsNames)
{
foreach (var func in funcs)
{
var channelName = func.ChannelRatioName;
List <double> ratios = new List <double>();
foreach (var m in ir)
{
var channelItem = m[0].FindITraqChannelItem(dsName, channelName);
if (null != channelItem && channelItem.HasRatio)
{
ratios.Add(Math.Log(channelItem.Ratio));
}
}
QuantificationUtils.RatioStatistic(sw, dsName + "\t" + channelName, ratios, ir.Count);
}
}
sw.WriteLine();
sw.WriteLine("Dataset\tChannel\tMean[log2(Ratio)]\tStandardDeviation[log2(Ratio)]\tRatio\t95%\t99%\t99.9%\tTotalCount\tValidCount\tP<0.05\tP<0.01\tp<0.001");
//After normalization, have a look at the ratio/ratio in same dataset
foreach (var dsName in option.DatasetMap.Keys)
{
for (int i = 0; i < funcs.Count; i++)
{
var channelNameI = funcs[i].ChannelRatioName;
for (int j = i + 1; j < funcs.Count; j++)
{
var channelNameJ = funcs[j].ChannelRatioName;
List <double> ratios = new List <double>();
foreach (var m in ir)
{
var channelItemI = m[0].FindITraqChannelItem(dsName, channelNameI);
var channelItemJ = m[0].FindITraqChannelItem(dsName, channelNameJ);
if (null != channelItemI && channelItemI.HasRatio && null != channelItemJ && channelItemJ.HasRatio)
{
ratios.Add(Math.Log(channelItemJ.Ratio / channelItemI.Ratio));
}
}
QuantificationUtils.RatioStatistic(sw, dsName + "\t" + funcs[j].Name + "/" + funcs[i].Name, ratios, ir.Count);
}
}
}
sw.WriteLine();
sw.WriteLine("Dataset\tChannel\tMean[log2(Ratio)]\tStandardDeviation[log2(Ratio)]\tRatio\t95%\t99%\t99.9%\tTotalCount\tValidCount\tP<0.05\tP<0.01\tp<0.001");
//After normalization, have a look at the ratio/ratio in diffent dataset
foreach (var func in funcs)
{
var channelName = func.ChannelRatioName;
for (int i = 0; i < dsNames.Count; i++)
{
var dsNameI = dsNames[i];
for (int j = i + 1; j < dsNames.Count; j++)
{
var dsNameJ = dsNames[j];
List <double> ratios = new List <double>();
foreach (var m in ir)
{
var channelItemI = m[0].FindITraqChannelItem(dsNameI, channelName);
var channelItemJ = m[0].FindITraqChannelItem(dsNameJ, channelName);
if (null != channelItemI && channelItemI.HasRatio && null != channelItemJ && channelItemJ.HasRatio)
{
ratios.Add(Math.Log(channelItemJ.Ratio / channelItemI.Ratio));
}
}
QuantificationUtils.RatioStatistic(sw, dsNameJ + "/" + dsNameI + "\t" + func.Name, ratios, ir.Count);
}
}
}
sw.WriteLine();
sw.WriteLine("Dataset\tChannel\tMean[log2(Ratio)]\tStandardDeviation[log2(Ratio)]\tRatio\t95%\t99%\t99.9%\tTotalCount\tValidCount\tP<0.05\tP<0.01\tp<0.001");
//After normalization, have a look at the ratio/ratio in diffent dataset
for (int f1 = 0; f1 < funcs.Count; f1++)
{
var c1 = funcs[f1].ChannelRatioName;
for (int f2 = f1 + 1; f2 < funcs.Count; f2++)
{
var c2 = funcs[f2].ChannelRatioName;
for (int i = 0; i < dsNames.Count; i++)
{
var dsNameI = dsNames[i];
for (int j = i + 1; j < dsNames.Count; j++)
{
var dsNameJ = dsNames[j];
List <double> ratios = new List <double>();
foreach (var m in ir)
{
var channelItemI = m[0].FindITraqChannelItem(dsNameI, c1);
var channelItemJ = m[0].FindITraqChannelItem(dsNameJ, c2);
if (null != channelItemI && channelItemI.HasRatio && null != channelItemJ && channelItemJ.HasRatio)
{
ratios.Add(Math.Log(channelItemJ.Ratio / channelItemI.Ratio));
}
}
QuantificationUtils.RatioStatistic(sw, dsNameJ + "/" + dsNameI + "\t" + funcs[f2].Name + "/" + funcs[f1].Name, ratios, ir.Count);
}
}
}
}
}
