35 #ifndef OPENMS_FORMAT_SEQUESTOUTFILE_H 36 #define OPENMS_FORMAT_SEQUESTOUTFILE_H 48 class ProteinIdentification;
98 void load(
const String & result_filename, std::vector<PeptideIdentification> & peptide_identifications,
ProteinIdentification & protein_identification,
const double p_value_threshold, std::vector<double> & pvalues,
const String & database =
"",
const bool ignore_proteins_per_peptide =
false);
104 bool getColumns(
const String & line, std::vector<String> & substrings,
Size number_of_columns,
Size reference_column);
114 void getSequences(
const String & database_filename,
const std::map<String, Size> & ac_position_map, std::vector<String> & sequences, std::vector<std::pair<String, Size> > & found, std::map<String, Size> & not_found);
125 void readOutHeader(
const String & result_filename,
DateTime & datetime,
double & precursor_mz_value,
Int & charge,
Size & precursor_mass_type,
Size & ion_mass_type,
Size & displayed_peptides,
String & sequest,
String & sequest_version,
String & database_type,
Int & number_column,
Int & rank_sp_column,
Int & id_column,
Int & mh_column,
Int & delta_cn_column,
Int & xcorr_column,
Int & sp_column,
Int & sf_column,
Int & ions_column,
Int & reference_column,
Int & peptide_column,
Int & score_column,
Size & number_of_columns);
129 static double const_weights_[];
130 static double xcorr_weights_[];
131 static double delta_cn_weights_[];
132 static double rank_sp_weights_[];
133 static double delta_mass_weights_[];
140 #endif // OPENMS_FORMAT_SEQUESTOUTFILE_H Representation of a protein identification run.
Definition: ProteinIdentification.h:62
A more convenient string class.
Definition: String.h:57
bool operator==(_Iterator< _Val, _Ref, _Ptr > const &, _Iterator< _Val, _Ref, _Ptr > const &)
Definition: KDTree.h:806
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
Representation of a Sequest output file.
Definition: SequestOutfile.h:62
size_t Size
Size type e.g. used as variable which can hold result of size()
Definition: Types.h:128
DateTime Class.
Definition: DateTime.h:55
int Int
Signed integer type.
Definition: Types.h:103