ProteoWizard
|
Namespaces | |
examples | |
IO | |
References | |
functions for resolving references from objects into the internal MSData lists | |
Classes | |
struct | Compound |
Chemical compound other than a peptide for which one or more transitions. More... | |
struct | Configuration |
Instrument configuration used in the validation or optimization of the transitions. More... | |
struct | Contact |
class | DefaultReaderList |
default Reader list More... | |
struct | DiffConfig |
configuration struct for diffs More... | |
struct | Evidence |
Information about empirical mass spectrometer observations of the peptide. More... | |
struct | Instrument |
Instrument on which transitions are validated. More... | |
struct | Interpretation |
A possible interpration of the product ion for a transition. More... | |
struct | Modification |
A molecule modification specification. More... | |
struct | Peptide |
Peptide for which one or more transitions are intended to identify. More... | |
struct | Precursor |
Precursor (Q1) of the transition. More... | |
struct | Prediction |
Information about a prediction for a suitable transition using some software. More... | |
struct | Product |
Product (Q3) of the transition. More... | |
struct | Protein |
struct | Publication |
class | Reader |
interface for file readers More... | |
class | ReaderFail |
class | ReaderList |
Reader container (composite pattern). More... | |
struct | RetentionTime |
class | Serializer_traML |
TraData <-> traML stream serialization. More... | |
struct | Software |
struct | Target |
A peptide or compound that is to be included or excluded from a target list of precursor m/z values. More... | |
struct | TargetList |
List of precursor m/z targets to include or exclude. More... | |
class | TextWriter |
struct | TraData |
struct | TraDataFile |
TraData object plus file I/O. More... | |
struct | Transition |
struct | Validation |
Information about the state of validation of a transition on a given instrument model. More... | |
struct | Version |
Typedefs | |
typedef boost::shared_ptr< Reader > | ReaderPtr |
typedef boost::shared_ptr< Contact > | ContactPtr |
typedef boost::shared_ptr< Software > | SoftwarePtr |
typedef boost::shared_ptr< Instrument > | InstrumentPtr |
typedef boost::shared_ptr< Protein > | ProteinPtr |
typedef boost::shared_ptr< Peptide > | PeptidePtr |
typedef boost::shared_ptr< Compound > | CompoundPtr |
typedef boost::shared_ptr< TraData > | TraDataPtr |
Functions | |
PWIZ_API_DECL std::ostream & | operator<< (std::ostream &os, const data::Diff< TraData, DiffConfig > &diff) |
PWIZ_API_DECL ReaderList | operator+ (const ReaderPtr &lhs, const ReaderPtr &rhs) |
returns a list containing the lhs and rhs as readers More... | |
PWIZ_API_DECL std::vector< CV > | defaultCVList () |
returns a default list of CVs used in an TraML document; currently includes PSI-MS, Unit Ontology, and UNIMOD More... | |
PWIZ_API_DECL std::ostream & | operator<< (std::ostream &os, TraDataFile::Format format) |
PWIZ_API_DECL std::ostream & | operator<< (std::ostream &os, const TraDataFile::WriteConfig &config) |
typedef boost::shared_ptr<Reader> pwiz::tradata::ReaderPtr |
Definition at line 95 of file Reader.hpp.
typedef boost::shared_ptr<Contact> pwiz::tradata::ContactPtr |
Definition at line 57 of file TraData.hpp.
typedef boost::shared_ptr<Software> pwiz::tradata::SoftwarePtr |
Definition at line 88 of file TraData.hpp.
typedef boost::shared_ptr<Instrument> pwiz::tradata::InstrumentPtr |
Definition at line 143 of file TraData.hpp.
typedef boost::shared_ptr<Protein> pwiz::tradata::ProteinPtr |
Definition at line 184 of file TraData.hpp.
typedef boost::shared_ptr<Peptide> pwiz::tradata::PeptidePtr |
Definition at line 236 of file TraData.hpp.
typedef boost::shared_ptr<Compound> pwiz::tradata::CompoundPtr |
Definition at line 254 of file TraData.hpp.
typedef boost::shared_ptr<TraData> pwiz::tradata::TraDataPtr |
Definition at line 406 of file TraData.hpp.
PWIZ_API_DECL std::ostream& pwiz::tradata::operator<< | ( | std::ostream & | os, |
const data::Diff< TraData, DiffConfig > & | diff | ||
) |
Referenced by pwiz::tradata::TraDataFile::WriteConfig::WriteConfig().
PWIZ_API_DECL ReaderList pwiz::tradata::operator+ | ( | const ReaderPtr & | lhs, |
const ReaderPtr & | rhs | ||
) |
returns a list containing the lhs and rhs as readers
Referenced by pwiz::tradata::ReaderList::getType().
PWIZ_API_DECL std::vector<CV> pwiz::tradata::defaultCVList | ( | ) |
returns a default list of CVs used in an TraML document; currently includes PSI-MS, Unit Ontology, and UNIMOD
PWIZ_API_DECL std::ostream& pwiz::tradata::operator<< | ( | std::ostream & | os, |
TraDataFile::Format | format | ||
) |
PWIZ_API_DECL std::ostream& pwiz::tradata::operator<< | ( | std::ostream & | os, |
const TraDataFile::WriteConfig & | config | ||
) |