Documentation for mspire (0.10.7)

Alphabetic Index

File Listing

README

Namespace Listing A-Z

Top Level Namespace

A

AA (Mspire::Mass)
AA (Mspire::Isotope)
Activation (Mspire::Mzml)
All (Mspire::Mass)
AminoacidModification (Mspire::Ident::Pepxml)
Analyzer (Mspire::Mzml)
Array

B

Bin (Mspire)

C

CV (Mspire)
CV (Mspire::Mzml)
CV
Centroid (Mspire::Spectrum)
Centroidish (Mspire::Spectrum)
Chromatogram (Mspire::Mzml)
ChromatogramList (Mspire::Mzml)
Cmdline (Mspire::Quant)
Commandline (Mspire::Imzml::Writer)
Commandline (Mspire)
Common (Mspire::Mass)
Component (Mspire::Mzml)
Contact (Mspire::Mzml)
Convenience (Mspire::Mzml)
Counts (Mspire::Quant::SpectralCounts)
Creator (Mspire::Ident::Peptide::Db)

D

DataArray (Mspire::Mzml)
DataArrayContainerLike (Mspire::Mzml)
DataArrayInfo (Mspire::Imzml)
DataProcessing (Mspire::Mzml)
Db (Mspire::Ident::Peptide)
Decoy (Mspire::ErrorRate)
Default (Mspire::Mzml)
Detector (Mspire::Mzml)
Digester (Mspire)
Distribution (Mspire::Isotope)

E

Element (Mspire::Mass)
Enumerable
EnzymaticSearchConstraint (Mspire::Ident::Pepxml)
ErrorRate (Mspire)

F

Fasta (Mspire)
FastaFormat (Bio)
FileContent (Mspire::Mzml)
FileDescription (Mspire::Mzml)
FlatFile (Bio)

H

Hash

I

IO (Mspire::Ident::Peptide::Db)
IO
IOIndex (Mspire::Mzml)
IOIndexableList (Mspire::Mzml)
Ident (Mspire)
Identml (Mspire)
Imzml (Mspire)
Index (Mspire::Mzml)
IndexList (Mspire::Mzml)
InstrumentConfiguration (Mspire::Mzml)
IsolationWindow (Mspire::Mzml)
Isotope (Mspire)

L

List (Mspire::Mzml)

M

Mascot (Mspire)
Mass (Mspire)
Merge
Modification (Mspire::Mzid)
MolecularFormula (Mspire)
MsmsPipelineAnalysis (Mspire::Ident::Pepxml)
MsmsRunSummary (Mspire::Ident::Pepxml)
Mspire
Mzid (Mspire)
Mzml (Mspire)

N

NIST (Mspire::Isotope)
Neese (Mspire::Isotope)
Numeric

O

OBO (Mspire)
Obo
Obo (Mspire::CV)
Ontology (Obo)

P

Param (Mspire::CV)
Param (CV)
Paramable (Mspire)
Paramable (Mspire::CV)
Parameters (Mspire::Ident::Pepxml)
Parser (Mspire::Mzml)
Peak (Mspire)
Peaklist (Mspire)
Peptide (Mspire::Ident)
PeptideHit (Mspire::Ident)
PeptideHitLike (Mspire::Ident)
Pepxml (Mspire::Ident)
Plms1 (Mspire)
Precursor (Mspire::Mzml)
ProcessingMethod (Mspire::Mzml)
Product (Mspire::Mzml)
Protein (Mspire::Ident)
ProteinGroup (Mspire::Ident)
ProteinGroupComparison (Mspire::Quant)
ProteinLike (Mspire::Ident)

Q

Qspec (Mspire::Quant)
Qspec (Mspire::Quant::ProteinGroupComparison)
Quant (Mspire)
Qvalue (Mspire::Ident::PeptideHit)
Qvalue (Mspire::ErrorRate)

R

Reader (Mspire::Mzml)
ReferenceableParamGroup (Mspire::Mzml)
ReferenceableParamGroupRef (CV)
Results (Mspire::Quant::Qspec)
Run (Mspire::Mzml)

S

Sample (Mspire::Mzml)
SampleEnzyme (Mspire::Ident::Pepxml)
Scan (Mspire::Mzml)
ScanList (Mspire::Mzml)
ScanNumbersNotFound (Mspire::Mzml)
ScanNumbersNotUnique (Mspire::Mzml)
ScanSettings (Mspire::Mzml)
ScanWindow (Mspire::Mzml)
Search (Mspire::Ident)
SearchDatabase (Mspire::Ident::Pepxml)
SearchGroup (Mspire::Ident)
SearchHit (Mspire::Ident::Pepxml)
SearchLike (Mspire::Ident)
SearchModification (Mspire::Identml)
SearchResult (Mspire::Ident::Pepxml)
SearchSummary (Mspire::Ident::Pepxml)
SelectedIon (Mspire::Mzml)
Simple (Mspire::Ident::Pepxml::SearchHit)
Software (Mspire::Mzml)
Source (Mspire::Mzml)
SourceFile (Mspire::Mzml)
SpectralCounts (Mspire::Quant::ProteinGroupComparison)
SpectralCounts (Mspire::Quant)
Spectrum (Mspire::Mzml)
Spectrum (Mspire)
SpectrumLike (Mspire)
SpectrumList (Mspire::Mzml)
SpectrumQuery (Mspire::Ident::Pepxml)
Stanza (Obo)
Subatomic (Mspire::Mass)

T

TaggedPeak (Mspire)
TerminalModification (Mspire::Ident::Pepxml)

U

UniqAAzCounts (Mspire::Quant::ProteinGroupComparison)
Updater (Mspire::Isotope::NIST)
UserParam (Mspire)
Util (Mspire::Mass)

W

Writer (Mspire::Imzml)