public void Write(PhosphoRSOutput output)
{
if (output == null)
{
throw new ArgumentNullException(nameof(output));
}
_writer.WriteRow(
"Spectrum.ID",
"Spectrum.Name",
"Spectrum.PrecursorCharge",
"Spectrum.ActivationType",
"Peptide.ID",
"Peptide.Sequence",
"Peptide.SitePrediction",
"Isoform.ID",
"Isoform.Sites",
"Isoform.Score",
"Isoform.Probability"
);
string SitePredictionToString(Wrapper.PeptideResult peptide)
{
return(string.Join(
" ",
peptide.SitePrediction
.Select(site => $"{peptide.Sequence[site.Position - 1]}{site.Position}({site.Probability.ToString("0.###")})")
));
}
output.Spectra.ForEach(spectrum =>
{
spectrum.Peptides.ForEach(peptide =>
{
peptide.Isoforms.ForEach(isoform =>
{
_writer.WriteRow(new string[] {
spectrum.ID.ToString(),
spectrum.Name,
spectrum.PrecursorCharge.ToString(),
spectrum.ActivationType.ToString(),
peptide.ID.ToString(),
peptide.Sequence,
SitePredictionToString(peptide),
isoform.ID.ToString(),
string.Join(" ", isoform.Sites.Select(site => $"{peptide.Sequence[site - 1]}{site}")),
isoform.Score.ToString(),
isoform.Probability.ToString()
});
});
});
});
}