Modifications

The modifications modules provide lookups for post-translational modifications from various databases.

Unimod

class tacular.unimod.lookup.UnimodLookup(data, version)[source]

Bases: OntologyLookup[UnimodInfo]

Parameters:

data (dict[str, UnimodInfo])
version (str)

class tacular.unimod.dclass.UnimodInfo(id, name, formula, monoisotopic_mass, average_mass, dict_composition)[source]

Bases: OboEntity

Class to store information about a Unimod modification

Parameters:

id (str)
name (str)
formula (str | None)
monoisotopic_mass (float | None)
average_mass (float | None)
dict_composition (Mapping[str, int] | None)

property id_tag: str

PSI-MOD

class tacular.psimod.lookup.PsimodLookup(data, version)[source]

Bases: OntologyLookup[PsimodInfo]

Parameters:

data (dict[str, PsimodInfo])
version (str)

class tacular.psimod.dclass.PsimodInfo(id, name, formula, monoisotopic_mass, average_mass, dict_composition)[source]

Bases: OboEntity

Class to store information about a PSI-MOD modification

Parameters:

id (str)
name (str)
formula (str | None)
monoisotopic_mass (float | None)
average_mass (float | None)
dict_composition (Mapping[str, int] | None)

property id_tag: str

RESID

class tacular.resid.lookup.ResidLookup(data, version)[source]

Bases: OntologyLookup[ResidInfo]

Parameters:

data (dict[str, ResidInfo])
version (str)

class tacular.resid.dclass.ResidInfo(id, name, formula, monoisotopic_mass, average_mass, dict_composition)[source]

Bases: OboEntity

Class to store information about a RESID modification

Parameters:

id (str)
name (str)
formula (str | None)
monoisotopic_mass (float | None)
average_mass (float | None)
dict_composition (Mapping[str, int] | None)

property id_tag: str

XLMOD

class tacular.xlmod.lookup.XlModLookup(data, version)[source]

Bases: OntologyLookup[XlModInfo]

Parameters:

data (dict[str, XlModInfo])
version (str)

class tacular.xlmod.dclass.XlModInfo(id, name, formula, monoisotopic_mass, average_mass, dict_composition)[source]

Bases: OboEntity

Class to store information about a Unimod modification

Parameters:

id (str)
name (str)
formula (str | None)
monoisotopic_mass (float | None)
average_mass (float | None)
dict_composition (Mapping[str, int] | None)

id_tag()[source]

Return type:: str

GNOme

class tacular.gno.lookup.GnoLookup(data, version)[source]

Bases: OntologyLookup[GnoInfo]

Parameters:

data (dict[str, GnoInfo])
version (str)

class tacular.gno.dclass.GnoInfo(id, name, formula, monoisotopic_mass, average_mass, dict_composition)[source]

Bases: OboEntity

Class to store information about a PSI-MOD modification

Parameters:

id (str)
name (str)
formula (str | None)
monoisotopic_mass (float | None)
average_mass (float | None)
dict_composition (Mapping[str, int] | None)

property id_tag: str