Index

A

A (tacular.amino_acids.AminoAcid attribute) (tacular.ion_types.IonType attribute) AA_SPECIFIC_BWD (tacular.ion_types.IonTypeProperty attribute) AA_SPECIFIC_FWD (tacular.ion_types.IonTypeProperty attribute) AALookup (class in tacular.amino_acids) abundance (tacular.elements.ElementInfo attribute), [1] Ac (tacular.elements.Element attribute) ADENINE (tacular.refmol.RefMolID attribute) Ag (tacular.elements.Element attribute) aHex (tacular.monosaccharides.Monosaccharide attribute) Al (tacular.elements.Element attribute) Am (tacular.elements.Element attribute) ambiguous_amino_acids (tacular.amino_acids.AALookup property) amino_acids (tacular.neutral_deltas.NeutralDeltaInfo attribute) AminoAcid (class in tacular.amino_acids) AminoAcidInfo (class in tacular.amino_acids)

AMMONIA (tacular.neutral_deltas.NeutralDelta attribute) Ar (tacular.elements.Element attribute) ARG_C (tacular.proteases.Proteases attribute) As (tacular.elements.Element attribute) ASP_N (tacular.proteases.Proteases attribute) At (tacular.elements.Element attribute) Au (tacular.elements.Element attribute) average_mass (tacular.amino_acids.AminoAcidInfo attribute) (tacular.elements.ElementInfo attribute), [1] (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.neutral_deltas.NeutralDeltaInfo attribute) (tacular.obo_entity.OboEntity attribute) (tacular.refmol.RefMolInfo attribute) AX (tacular.ion_types.IonType attribute) AY (tacular.ion_types.IonType attribute) AZ (tacular.ion_types.IonType attribute)

B

B (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) (tacular.ion_types.IonType attribute) Ba (tacular.elements.Element attribute) BACKWARD (tacular.ion_types.IonTypeProperty attribute) Be (tacular.elements.Element attribute)

Bh (tacular.elements.Element attribute) Bi (tacular.elements.Element attribute) Bk (tacular.elements.Element attribute) Br (tacular.elements.Element attribute) BX (tacular.ion_types.IonType attribute) BY (tacular.ion_types.IonType attribute) BZ (tacular.ion_types.IonType attribute)

C

C (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) (tacular.ion_types.IonType attribute) C_MINUS_H (tacular.ion_types.IonType attribute) Ca (tacular.elements.Element attribute) calculate_loss_sites() (tacular.neutral_deltas.NeutralDeltaInfo method) CARBON_DIOXIDE (tacular.neutral_deltas.NeutralDelta attribute) CARBON_MONOXIDE (tacular.neutral_deltas.NeutralDelta attribute) Cd (tacular.elements.Element attribute) Ce (tacular.elements.Element attribute) Cf (tacular.elements.Element attribute) chemical_formula (tacular.refmol.RefMolInfo attribute) choice() (tacular.obo_lookup.OntologyLookup method) CHYMOTRYPSIN (tacular.proteases.Proteases attribute) CHYMOTRYPSIN_LOW (tacular.proteases.Proteases attribute) CHYMOTRYPSIN_PROMEGA_HIGH (tacular.proteases.Proteases attribute) CHYMOTRYPSIN_PROMEGA_LOW (tacular.proteases.Proteases attribute)

Cl (tacular.elements.Element attribute) Cm (tacular.elements.Element attribute) Cn (tacular.elements.Element attribute) Co (tacular.elements.Element attribute) composition (tacular.amino_acids.AminoAcidInfo property) (tacular.ion_types.FragmentIonInfo property) (tacular.neutral_deltas.NeutralDeltaInfo property) (tacular.obo_entity.OboEntity property) (tacular.refmol.RefMolInfo property) composition() (tacular.amino_acids.AALookup method) convert_key() (in module tacular.obo_lookup) Cr (tacular.elements.Element attribute) Cs (tacular.elements.Element attribute) Cu (tacular.elements.Element attribute) CX (tacular.ion_types.IonType attribute) CY (tacular.ion_types.IonType attribute) CYTOSINE (tacular.refmol.RefMolID attribute) CZ (tacular.ion_types.IonType attribute)

D

D (tacular.amino_acids.AminoAcid attribute) (tacular.ion_types.IonType attribute) D_VALINE (tacular.ion_types.IonType attribute) DA (tacular.ion_types.IonType attribute) DA_ISOLEUCINE (tacular.ion_types.IonType attribute) DA_THREONINE (tacular.ion_types.IonType attribute) Db (tacular.elements.Element attribute) DB (tacular.ion_types.IonType attribute) DB_ISOLEUCINE (tacular.ion_types.IonType attribute) DB_THREONINE (tacular.ion_types.IonType attribute)

Dec (tacular.monosaccharides.Monosaccharide attribute) description (tacular.neutral_deltas.NeutralDeltaInfo attribute) dHex (tacular.monosaccharides.Monosaccharide attribute) dict_composition (tacular.amino_acids.AminoAcidInfo attribute) (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.neutral_deltas.NeutralDeltaInfo attribute) (tacular.obo_entity.OboEntity attribute) (tacular.refmol.RefMolInfo attribute) Ds (tacular.elements.Element attribute) Dy (tacular.elements.Element attribute)

E

E (tacular.amino_acids.AminoAcid attribute) ELASTASE (tacular.proteases.Proteases attribute) Element (class in tacular.elements) ElementInfo (class in tacular.elements)

ElementLookup (class in tacular.elements) en_aHex (tacular.monosaccharides.Monosaccharide attribute) Er (tacular.elements.Element attribute) Es (tacular.elements.Element attribute) Eu (tacular.elements.Element attribute)

F

F (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) Fe (tacular.elements.Element attribute) filter_infos() (in module tacular.obo_entity) Fl (tacular.elements.Element attribute) Fm (tacular.elements.Element attribute) FORMAMIDE (tacular.neutral_deltas.NeutralDelta attribute) FORMIC_ACID (tacular.neutral_deltas.NeutralDelta attribute) formula (tacular.amino_acids.AminoAcidInfo attribute) (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.neutral_deltas.NeutralDeltaInfo attribute) (tacular.obo_entity.OboEntity attribute)

FORWARD (tacular.ion_types.IonTypeProperty attribute) Fr (tacular.elements.Element attribute) FragmentIonInfo (class in tacular.ion_types) FragmentIonLookup (class in tacular.ion_types) from_str() (tacular.amino_acids.AminoAcid class method) (tacular.elements.Element class method) (tacular.monosaccharides.Monosaccharide class method) Fuc (tacular.monosaccharides.Monosaccharide attribute) full_name (tacular.proteases.ProteaseInfo attribute)

G

G (tacular.amino_acids.AminoAcid attribute) Ga (tacular.elements.Element attribute) Gd (tacular.elements.Element attribute) Ge (tacular.elements.Element attribute) get() (tacular.amino_acids.AALookup method) (tacular.elements.ElementLookup method) (tacular.ion_types.FragmentIonLookup method) (tacular.monosaccharides.MonosaccharideLookup method) (tacular.obo_lookup.OntologyLookup method) (tacular.refmol.RefMolLookup method) get_all_isotopes() (tacular.elements.ElementLookup method) get_elements() (tacular.elements.ElementLookup method)

get_isotope() (tacular.elements.ElementLookup method) get_mass() (tacular.amino_acids.AminoAcidInfo method) (tacular.elements.ElementInfo method) (tacular.ion_types.FragmentIonInfo method) (tacular.neutral_deltas.NeutralDeltaInfo method) (tacular.refmol.RefMolInfo method) get_masses_and_abundances() (tacular.elements.ElementLookup method) get_monoisotopic() (tacular.elements.ElementLookup method) get_neutron_offsets_and_abundances() (tacular.elements.ElementLookup method) GLU_C (tacular.proteases.Proteases attribute) GnoInfo (class in tacular.gno.dclass) GnoLookup (class in tacular.gno.lookup) GUANINE (tacular.refmol.RefMolID attribute)

H

H (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) He (tacular.elements.Element attribute) Hep (tacular.monosaccharides.Monosaccharide attribute) Hex (tacular.monosaccharides.Monosaccharide attribute) HexN (tacular.monosaccharides.Monosaccharide attribute) HexNAc (tacular.monosaccharides.Monosaccharide attribute) HexNAcS (tacular.monosaccharides.Monosaccharide attribute)

HexNS (tacular.monosaccharides.Monosaccharide attribute) HexP (tacular.monosaccharides.Monosaccharide attribute) HexS (tacular.monosaccharides.Monosaccharide attribute) Hf (tacular.elements.Element attribute) Hg (tacular.elements.Element attribute) Ho (tacular.elements.Element attribute) Hs (tacular.elements.Element attribute) HYDROGEN (tacular.neutral_deltas.NeutralDelta attribute)

I

I (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) id (tacular.amino_acids.AminoAcidInfo attribute) (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.obo_entity.OboEntity attribute) (tacular.proteases.ProteaseInfo attribute) id_tag (tacular.gno.dclass.GnoInfo property) (tacular.obo_entity.OboEntity property) (tacular.psimod.dclass.PsimodInfo property) (tacular.resid.dclass.ResidInfo property) (tacular.unimod.dclass.UnimodInfo property) id_tag() (tacular.xlmod.dclass.XlModInfo method) IMMONIUM (tacular.ion_types.IonType attribute) In (tacular.elements.Element attribute) INTACT (tacular.ion_types.IonTypeProperty attribute) INTERNAL (tacular.ion_types.IonTypeProperty attribute) ion_type (tacular.ion_types.FragmentIonInfo property) IonType (class in tacular.ion_types) IonTypeProperty (class in tacular.ion_types) Ir (tacular.elements.Element attribute) is_aa_specific_backward (tacular.ion_types.FragmentIonInfo property)

is_aa_specific_forward (tacular.ion_types.FragmentIonInfo property) is_ambiguous (tacular.amino_acids.AminoAcidInfo attribute) is_ambiguous() (tacular.amino_acids.AALookup method) is_backward (tacular.ion_types.FragmentIonInfo property) is_forward (tacular.ion_types.FragmentIonInfo property) is_intact (tacular.ion_types.FragmentIonInfo property) is_internal (tacular.ion_types.FragmentIonInfo property) is_mass_ambiguous (tacular.amino_acids.AminoAcidInfo attribute) is_mass_ambiguous() (tacular.amino_acids.AALookup method) is_mass_unambiguous() (tacular.amino_acids.AALookup method) is_monoisotopic (tacular.elements.ElementInfo attribute), [1] is_radioactive (tacular.elements.ElementInfo property) is_unambiguous() (tacular.amino_acids.AALookup method) ITRAQ113 (tacular.refmol.RefMolID attribute) ITRAQ114 (tacular.refmol.RefMolID attribute) ITRAQ115 (tacular.refmol.RefMolID attribute) ITRAQ116 (tacular.refmol.RefMolID attribute) ITRAQ117 (tacular.refmol.RefMolID attribute) ITRAQ118 (tacular.refmol.RefMolID attribute) ITRAQ119 (tacular.refmol.RefMolID attribute) ITRAQ121 (tacular.refmol.RefMolID attribute) ITRAQ4PLEX (tacular.refmol.RefMolID attribute) ITRAQ8PLEX (tacular.refmol.RefMolID attribute)

J

J (tacular.amino_acids.AminoAcid attribute)

K

K (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute)

keys() (tacular.elements.ElementLookup method) (tacular.obo_lookup.OntologyLookup method) Kr (tacular.elements.Element attribute)

L

L (tacular.amino_acids.AminoAcid attribute) La (tacular.elements.Element attribute) label_type (tacular.refmol.RefMolInfo attribute) Li (tacular.elements.Element attribute)

Lr (tacular.elements.Element attribute) Lu (tacular.elements.Element attribute) Lv (tacular.elements.Element attribute) LYS_C (tacular.proteases.Proteases attribute) LYS_N (tacular.proteases.Proteases attribute)

M

M (tacular.amino_acids.AminoAcid attribute) mass (tacular.elements.ElementInfo attribute), [1] mass() (tacular.amino_acids.AALookup method) (tacular.elements.ElementLookup method) (tacular.obo_entity.OboEntity method) mass_amino_acids (tacular.amino_acids.AALookup property) mass_number (tacular.elements.ElementInfo attribute), [1] mass_unambiguous_amino_acids (tacular.amino_acids.AALookup property) Mc (tacular.elements.Element attribute) Md (tacular.elements.Element attribute) MERCAPTOACETAMIDE (tacular.neutral_deltas.NeutralDelta attribute) MERCAPTOACETIC_ACID (tacular.neutral_deltas.NeutralDelta attribute) METAPHOSPHORIC_ACID (tacular.neutral_deltas.NeutralDelta attribute) METHANESULFENIC_ACID (tacular.neutral_deltas.NeutralDelta attribute) Mg (tacular.elements.Element attribute) Mn (tacular.elements.Element attribute) Mo (tacular.elements.Element attribute) module tacular.amino_acids tacular.elements tacular.gno.dclass tacular.gno.lookup tacular.ion_types tacular.monosaccharides tacular.neutral_deltas tacular.obo_entity tacular.obo_lookup tacular.proteases tacular.psimod.dclass tacular.psimod.lookup tacular.refmol tacular.resid.dclass tacular.resid.lookup tacular.unimod.dclass tacular.unimod.lookup tacular.xlmod.dclass tacular.xlmod.lookup

molecule_type (tacular.refmol.RefMolInfo attribute) monoisotopic_mass (tacular.amino_acids.AminoAcidInfo attribute) (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.neutral_deltas.NeutralDeltaInfo attribute) (tacular.obo_entity.OboEntity attribute) (tacular.refmol.RefMolInfo attribute) Monosaccharide (class in tacular.monosaccharides) MonosaccharideInfo (class in tacular.monosaccharides) MonosaccharideLookup (class in tacular.monosaccharides) Mt (tacular.elements.Element attribute)

N

N (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) Na (tacular.elements.Element attribute) name (tacular.amino_acids.AminoAcidInfo attribute) (tacular.ion_types.FragmentIonInfo attribute) (tacular.monosaccharides.MonosaccharideInfo attribute) (tacular.neutral_deltas.NeutralDeltaInfo attribute) (tacular.obo_entity.OboEntity attribute) (tacular.proteases.ProteaseInfo attribute) (tacular.refmol.RefMolInfo attribute) name() (tacular.amino_acids.AALookup method) Nb (tacular.elements.Element attribute) Nd (tacular.elements.Element attribute) Ne (tacular.elements.Element attribute) Neu (tacular.monosaccharides.Monosaccharide attribute)

NeuAc (tacular.monosaccharides.Monosaccharide attribute) NeuGc (tacular.monosaccharides.Monosaccharide attribute) NEUTRAL (tacular.ion_types.IonType attribute) NeutralDelta (class in tacular.neutral_deltas) NeutralDeltaInfo (class in tacular.neutral_deltas) NeutralDeltaLookup (class in tacular.neutral_deltas) neutron_count (tacular.elements.ElementInfo property) NEUTRON_MASS (tacular.elements.ElementLookup attribute) Nh (tacular.elements.Element attribute) Ni (tacular.elements.Element attribute) No (tacular.elements.Element attribute) NO_ENZYME (tacular.proteases.Proteases attribute) Non (tacular.monosaccharides.Monosaccharide attribute) NONE (tacular.ion_types.IonTypeProperty attribute) Np (tacular.elements.Element attribute) number (tacular.elements.ElementInfo attribute), [1]

O

O (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) OboEntity (class in tacular.obo_entity) Oct (tacular.monosaccharides.Monosaccharide attribute) Og (tacular.elements.Element attribute)

one_letter() (tacular.amino_acids.AALookup method) one_letter_code (tacular.amino_acids.AminoAcidInfo property) OntologyLookup (class in tacular.obo_lookup) ordered_amino_acids (tacular.amino_acids.AALookup property) Os (tacular.elements.Element attribute)

P

P (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) Pa (tacular.elements.Element attribute) parse_composition() (in module tacular.elements) pattern (tacular.proteases.ProteaseInfo property) Pb (tacular.elements.Element attribute) Pd (tacular.elements.Element attribute) Pen (tacular.monosaccharides.Monosaccharide attribute) PEPSIN (tacular.proteases.Proteases attribute) Phosphate (tacular.monosaccharides.Monosaccharide attribute) PHOSPHORIC_ACID (tacular.neutral_deltas.NeutralDelta attribute) Pm (tacular.elements.Element attribute) Po (tacular.elements.Element attribute)

Pr (tacular.elements.Element attribute) PRECURSOR (tacular.ion_types.IonType attribute) PROALANASE (tacular.proteases.Proteases attribute) PROALANASE_LOW (tacular.proteases.Proteases attribute) proforma() (tacular.monosaccharides.MonosaccharideLookup method) properties (tacular.ion_types.FragmentIonInfo attribute) ProteaseInfo (class in tacular.proteases) Proteases (class in tacular.proteases) PROTEINASE_K (tacular.proteases.Proteases attribute) proton_count (tacular.elements.ElementInfo property) PsimodInfo (class in tacular.psimod.dclass) PsimodLookup (class in tacular.psimod.lookup) Pt (tacular.elements.Element attribute) Pu (tacular.elements.Element attribute)

Q

Q (tacular.amino_acids.AminoAcid attribute) query_delta() (tacular.neutral_deltas.NeutralDeltaLookup method) query_formula() (tacular.neutral_deltas.NeutralDeltaLookup method) query_id() (tacular.ion_types.FragmentIonLookup method) (tacular.obo_lookup.OntologyLookup method) (tacular.refmol.RefMolLookup method) query_ion_type() (tacular.ion_types.FragmentIonLookup method)

query_label_type() (tacular.refmol.RefMolLookup method) query_mass() (tacular.obo_lookup.OntologyLookup method) query_molecule_type() (tacular.refmol.RefMolLookup method) query_name() (tacular.ion_types.FragmentIonLookup method) (tacular.neutral_deltas.NeutralDeltaLookup method) (tacular.obo_lookup.OntologyLookup method) (tacular.refmol.RefMolLookup method)

R

R (tacular.amino_acids.AminoAcid attribute) Ra (tacular.elements.Element attribute) Rb (tacular.elements.Element attribute) Re (tacular.elements.Element attribute) RefMolID (class in tacular.refmol) RefMolInfo (class in tacular.refmol) RefMolLookup (class in tacular.refmol)

regex (tacular.proteases.ProteaseInfo attribute) ResidInfo (class in tacular.resid.dclass) ResidLookup (class in tacular.resid.lookup) Rf (tacular.elements.Element attribute) Rg (tacular.elements.Element attribute) Rh (tacular.elements.Element attribute) Rn (tacular.elements.Element attribute) Ru (tacular.elements.Element attribute)

S

S (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) Sb (tacular.elements.Element attribute) Sc (tacular.elements.Element attribute) Se (tacular.elements.Element attribute) serialize() (tacular.elements.ElementInfo method) Sg (tacular.elements.Element attribute) Si (tacular.elements.Element attribute) SIDECHAIN_A (tacular.refmol.RefMolID attribute) SIDECHAIN_C (tacular.refmol.RefMolID attribute) SIDECHAIN_D (tacular.refmol.RefMolID attribute) SIDECHAIN_E (tacular.refmol.RefMolID attribute) SIDECHAIN_F (tacular.refmol.RefMolID attribute) SIDECHAIN_G (tacular.refmol.RefMolID attribute) SIDECHAIN_H (tacular.refmol.RefMolID attribute) SIDECHAIN_I (tacular.refmol.RefMolID attribute) SIDECHAIN_J (tacular.refmol.RefMolID attribute) SIDECHAIN_K (tacular.refmol.RefMolID attribute) SIDECHAIN_L (tacular.refmol.RefMolID attribute)

SIDECHAIN_M (tacular.refmol.RefMolID attribute) SIDECHAIN_N (tacular.refmol.RefMolID attribute) SIDECHAIN_O (tacular.refmol.RefMolID attribute) SIDECHAIN_Q (tacular.refmol.RefMolID attribute) SIDECHAIN_R (tacular.refmol.RefMolID attribute) SIDECHAIN_S (tacular.refmol.RefMolID attribute) SIDECHAIN_T (tacular.refmol.RefMolID attribute) SIDECHAIN_U (tacular.refmol.RefMolID attribute) SIDECHAIN_V (tacular.refmol.RefMolID attribute) SIDECHAIN_W (tacular.refmol.RefMolID attribute) SIDECHAIN_Y (tacular.refmol.RefMolID attribute) Sm (tacular.elements.Element attribute) Sn (tacular.elements.Element attribute) Sr (tacular.elements.Element attribute) strip_id() (in module tacular.obo_lookup) Sug (tacular.monosaccharides.Monosaccharide attribute) Sulfate (tacular.monosaccharides.Monosaccharide attribute) SULFUR_TRIOXIDE (tacular.neutral_deltas.NeutralDelta attribute) symbol (tacular.elements.ElementInfo attribute), [1]

T

T (tacular.amino_acids.AminoAcid attribute) Ta (tacular.elements.Element attribute) tacular.amino_acids module tacular.elements module tacular.gno.dclass module tacular.gno.lookup module tacular.ion_types module tacular.monosaccharides module tacular.neutral_deltas module tacular.obo_entity module tacular.obo_lookup module tacular.proteases module tacular.psimod.dclass module tacular.psimod.lookup module tacular.refmol module tacular.resid.dclass module tacular.resid.lookup module tacular.unimod.dclass module tacular.unimod.lookup module tacular.xlmod.dclass module tacular.xlmod.lookup module Tb (tacular.elements.Element attribute) Tc (tacular.elements.Element attribute) Te (tacular.elements.Element attribute) Tet (tacular.monosaccharides.Monosaccharide attribute) Th (tacular.elements.Element attribute) THERMOLYSIN (tacular.proteases.Proteases attribute) three_letter() (tacular.amino_acids.AALookup method) three_letter_code (tacular.amino_acids.AminoAcidInfo attribute)

THYMINE (tacular.refmol.RefMolID attribute) Ti (tacular.elements.Element attribute) Tl (tacular.elements.Element attribute) Tm (tacular.elements.Element attribute) TMT126 (tacular.refmol.RefMolID attribute) TMT126_ETD (tacular.refmol.RefMolID attribute) TMT127C (tacular.refmol.RefMolID attribute) TMT127C_ETD (tacular.refmol.RefMolID attribute) TMT127N (tacular.refmol.RefMolID attribute) TMT127N_ETD (tacular.refmol.RefMolID attribute) TMT128C (tacular.refmol.RefMolID attribute) TMT128C_ETD (tacular.refmol.RefMolID attribute) TMT128N (tacular.refmol.RefMolID attribute) TMT128N_ETD (tacular.refmol.RefMolID attribute) TMT129C (tacular.refmol.RefMolID attribute) TMT129C_ETD (tacular.refmol.RefMolID attribute) TMT129N (tacular.refmol.RefMolID attribute) TMT129N_ETD (tacular.refmol.RefMolID attribute) TMT130C (tacular.refmol.RefMolID attribute) TMT130C_ETD (tacular.refmol.RefMolID attribute) TMT130N (tacular.refmol.RefMolID attribute) TMT130N_ETD (tacular.refmol.RefMolID attribute) TMT131C (tacular.refmol.RefMolID attribute) TMT131C_ETD (tacular.refmol.RefMolID attribute) TMT131N (tacular.refmol.RefMolID attribute) TMT131N_ETD (tacular.refmol.RefMolID attribute) TMT132C (tacular.refmol.RefMolID attribute) TMT132N (tacular.refmol.RefMolID attribute) TMT133C (tacular.refmol.RefMolID attribute) TMT133N (tacular.refmol.RefMolID attribute) TMT134C (tacular.refmol.RefMolID attribute) TMT134N (tacular.refmol.RefMolID attribute) TMT135N (tacular.refmol.RefMolID attribute) TMT2PLEX (tacular.refmol.RefMolID attribute) TMT6PLEX (tacular.refmol.RefMolID attribute) TMTPRO (tacular.refmol.RefMolID attribute) TMTPRO_ZERO (tacular.refmol.RefMolID attribute) TMTZERO (tacular.refmol.RefMolID attribute) to_dict() (tacular.amino_acids.AminoAcidInfo method) (tacular.elements.ElementInfo method) (tacular.ion_types.FragmentIonInfo method) (tacular.neutral_deltas.NeutralDeltaInfo method) (tacular.obo_entity.OboEntity method) (tacular.proteases.ProteaseInfo method) (tacular.refmol.RefMolInfo method) Tri (tacular.monosaccharides.Monosaccharide attribute) TRYPSIN (tacular.proteases.Proteases attribute) TRYPSIN_FULL (tacular.proteases.Proteases attribute) Ts (tacular.elements.Element attribute)

U

U (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) unambiguous_amino_acids (tacular.amino_acids.AALookup property) UnimodInfo (class in tacular.unimod.dclass)

UnimodLookup (class in tacular.unimod.lookup) UNSPECIFIC (tacular.proteases.Proteases attribute) update() (tacular.elements.ElementInfo method) (tacular.obo_entity.OboEntity method) URACIL (tacular.refmol.RefMolID attribute)

V

V (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) (tacular.ion_types.IonType attribute)

values() (tacular.elements.ElementLookup method) (tacular.obo_lookup.OntologyLookup method) version (tacular.obo_lookup.OntologyLookup property)

W

W (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) (tacular.ion_types.IonType attribute) W_VALINE (tacular.ion_types.IonType attribute) WA (tacular.ion_types.IonType attribute)

WA_ISOLEUCINE (tacular.ion_types.IonType attribute) WA_THREONINE (tacular.ion_types.IonType attribute) WATER (tacular.neutral_deltas.NeutralDelta attribute) WB (tacular.ion_types.IonType attribute) WB_ISOLEUCINE (tacular.ion_types.IonType attribute) WB_THREONINE (tacular.ion_types.IonType attribute)

X

X (tacular.amino_acids.AminoAcid attribute) (tacular.ion_types.IonType attribute)

Xe (tacular.elements.Element attribute) XlModInfo (class in tacular.xlmod.dclass) XlModLookup (class in tacular.xlmod.lookup)

Y

Y (tacular.amino_acids.AminoAcid attribute) (tacular.elements.Element attribute) (tacular.ion_types.IonType attribute)

Yb (tacular.elements.Element attribute)

Z

Z (tacular.amino_acids.AminoAcid attribute) (tacular.ion_types.IonType attribute) Z_PLUS_H (tacular.ion_types.IonType attribute)

Z_RADICAL (tacular.ion_types.IonType attribute) Zn (tacular.elements.Element attribute) Zr (tacular.elements.Element attribute)