Index

A

add() (rustyms.MolecularFormula method) All (rustyms.FragmentationModel attribute) ambiguous (rustyms.SequenceElement attribute) ambiguous_modifications (rustyms.LinearPeptide attribute) AmbiguousModification (class in rustyms) AminoAcid (class in rustyms) aminoacid (rustyms.SequenceElement attribute)

annotate() (rustyms.RawSpectrum method) AnnotatedPeak (class in rustyms) AnnotatedSpectrum (class in rustyms) annotation (rustyms.AnnotatedPeak attribute) Average (rustyms.MassMode attribute) average_weight() (rustyms.Element method) (rustyms.MolecularFormula method)

C

c_term (rustyms.LinearPeptide attribute) charge (rustyms.AnnotatedSpectrum attribute) (rustyms.Fragment attribute) (rustyms.LinearPeptide attribute) (rustyms.RawSpectrum attribute)

charge() (rustyms.MolecularFormula method) charge_carriers (rustyms.MolecularCharge attribute) CidHcd (rustyms.FragmentationModel attribute)

E

Element (class in rustyms) elements() (rustyms.MolecularFormula method) Etcid (rustyms.FragmentationModel attribute)

Etd (rustyms.FragmentationModel attribute) Ethcd (rustyms.FragmentationModel attribute) experimental_mz (rustyms.AnnotatedPeak attribute)

F

formula (rustyms.Fragment attribute) formula() (rustyms.AminoAcid method) (rustyms.LinearPeptide method) (rustyms.Modification method) formula_all() (rustyms.SequenceElement method) formula_greedy() (rustyms.SequenceElement method)

formulas() (rustyms.AminoAcid method) (rustyms.SequenceElement method) Fragment (class in rustyms) FragmentationModel (class in rustyms) from_pro_forma() (rustyms.MolecularFormula method) from_psi_mod() (rustyms.MolecularFormula method)

G

generate_theoretical_fragments() (rustyms.LinearPeptide method)

group (rustyms.AmbiguousModification attribute)

H

hill_notation() (rustyms.MolecularFormula method)

hill_notation_fancy() (rustyms.MolecularFormula method) hill_notation_html() (rustyms.MolecularFormula method)

I

id (rustyms.AmbiguousModification attribute) intensity (rustyms.AnnotatedPeak attribute) (rustyms.RawPeak attribute)

ion (rustyms.Fragment attribute) isotopes() (rustyms.Element method)

L

label (rustyms.Fragment attribute) labile (rustyms.LinearPeptide attribute)

LinearPeptide (class in rustyms) localisation_score (rustyms.AmbiguousModification attribute)

M

mass (rustyms.AnnotatedSpectrum attribute) (rustyms.RawSpectrum attribute) mass() (rustyms.Element method) (rustyms.MolecularFormula method) MassMode (class in rustyms) Modification (class in rustyms) modification (rustyms.AmbiguousModification attribute) modifications (rustyms.SequenceElement attribute) module rustyms

MolecularCharge (class in rustyms) MolecularFormula (class in rustyms) Monoisotopic (rustyms.MassMode attribute) monoisotopic_mass() (rustyms.AminoAcid method) (rustyms.Modification method) (rustyms.MolecularFormula method) monoisotopic_masses() (rustyms.AminoAcid method) mz (rustyms.RawPeak attribute)

N

n_term (rustyms.LinearPeptide attribute) neutral_loss (rustyms.Fragment attribute)

num_scans (rustyms.AnnotatedSpectrum attribute) (rustyms.RawSpectrum attribute)

P

peptide_index (rustyms.Fragment attribute)

possible_modifications (rustyms.SequenceElement attribute) proton() (rustyms.MolecularCharge method)

R

RawPeak (class in rustyms) RawSpectrum (class in rustyms) reverse() (rustyms.LinearPeptide method)

rt (rustyms.AnnotatedSpectrum attribute) (rustyms.RawSpectrum attribute) rustyms module

S

sequence (rustyms.LinearPeptide attribute) SequenceElement (class in rustyms)

spectrum (rustyms.AnnotatedSpectrum attribute) (rustyms.RawSpectrum attribute) stripped_sequence (rustyms.LinearPeptide attribute)

T

title (rustyms.AnnotatedSpectrum attribute) (rustyms.RawSpectrum attribute)

W

with_global_isotope_modifications() (rustyms.MolecularFormula method)