Table of Contents
Target Namespace
http://www.matrixscience.com/xmlns/schema/quantitation_2
Element and Attribute Namespaces
Global element and attribute declarations belong to this schema's target namespace.
By default, local element declarations belong to this schema's target namespace.
By default, local attribute declarations have no namespace.
Declared Namespaces
Prefix
Namespace
xml
http://www.w3.org/XML/1998/namespace
mqm
http://www.matrixscience.com/xmlns/schema/quantitation_2
xs
http://www.w3.org/2001/XMLSchema
Schema Component Representation
<
xs:schema targetNamespace ="
http://www.matrixscience.com/xmlns/schema/quantitation_2 "
elementFormDefault ="
qualified "
attributeFormDefault ="
unqualified ">
...
</
xs:schema >
Schema Component Representation
<
xs:element name ="
quantitation "
type ="
mqm :quantitationType ">
<
xs:unique name ="
method_name_unique ">
<xs:selector xpath ="mqm:method "/>
<xs:field xpath ="@name "/>
</
xs:unique >
</
xs:element >
Super-types:
parametersType
< averageType (by extension)
Sub-types:
None
Name
averageType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
num_peptides="xs :integer[0..1] ? " selection="mqm :averageSelectionType [0..1] ? " reference_accession="xs :string[0..1] ? " reference_database="xs :string[0..1] ? " reference_amount="xs :double[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
averageType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:attribute name ="
num_peptides "
type ="
xs :integer"
use ="
optional "
default ="
3 "/>
<
xs:attribute name ="
reference_accession "
type ="
xs :string"
use ="
optional "/>
<
xs:attribute name ="
reference_database "
type ="
xs :string"
use ="
optional "/>
<
xs:attribute name ="
reference_amount "
type ="
xs :double"
use ="
optional "
default ="
1.0 "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
componentType
Abstract
no
Documentation
Data for individual peak
Schema Component Representation
<
xs:complexType name ="
componentType ">
<
xs:sequence >
<
xs:element name ="
isotope "
type ="
mqm :isotopeType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
correction "
type ="
mqm :correctionType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
</
xs:complexType >
Super-types:
None
Sub-types:
Name
compositionType
Abstract
no
Documentation
Unimod composition
Schema Component Representation
<
xs:complexType name ="
compositionType ">
<
xs:sequence >
<
xs:element name ="
element "
type ="
mqm :elementRefType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
</
xs:complexType >
Super-types:
xs :double < correctionType (by extension)
Sub-types:
None
Name
correctionType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
correctionType ">
<
xs:simpleContent >
<
xs:extension base ="
xs :double">
<
xs:attribute name ="
shift "
type ="
xs :integer"
use ="
optional "/>
<
xs:attribute name ="
element "
type ="
xs :string"
use ="
optional "/>
</
xs:extension >
</
xs:simpleContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
elementRefType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
elementRefType ">
<
xs:attribute name ="
number "
type ="
xs :integer"
use ="
optional "
default ="
1 "/>
</
xs:complexType >
Super-types:
parametersType
< integrationType (by extension)
Sub-types:
None
Name
integrationType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
method="mqm :integrationMethodType [1] ? " source="mqm :scanType [0..1] ? " allow_elution_shift="xs :boolean[0..1] ? " elution_time_delta="xs :double[0..1] ? " elution_time_delta_unit="mqm :timeUnitType [0..1] ? " elution_profile_correlation_threshold="xs :double[0..1] ? " matched_rho="xs :double[0..1] ? " xic_threshold="xs :double[0..1] ? " xic_max_width="xs :integer[0..1] ? " xic_smoothing="xs :integer[0..1] ? " all_charge_states="xs :boolean[0..1] ? " all_charge_states_threshold="xs :double[0..1] ? " simple_ratio="xs :boolean[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
integrationType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:attribute name ="
source "
type ="
mqm :scanType "
use ="
optional "
default ="
survey "/>
<
xs:attribute name ="
allow_elution_shift "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
<
xs:attribute name ="
elution_time_delta "
type ="
xs :double"
use ="
optional "/>
<
xs:attribute name ="
elution_time_delta_unit "
type ="
mqm :timeUnitType "
use ="
optional "
default ="
seconds "/>
<
xs:attribute name ="
elution_profile_correlation_threshold "
type ="
xs :double"
use ="
optional "/>
<
xs:attribute name ="
matched_rho "
type ="
xs :double"
use ="
optional "
default ="
0.7 "/>
<
xs:attribute name ="
xic_threshold "
type ="
xs :double"
use ="
optional "
default ="
0.1 "/>
<
xs:attribute name ="
xic_max_width "
type ="
xs :integer"
use ="
optional "
default ="
250 "/>
<
xs:attribute name ="
xic_smoothing "
type ="
xs :integer"
use ="
optional "
default ="
3 "/>
<
xs:attribute name ="
all_charge_states "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
<
xs:attribute name ="
all_charge_states_threshold "
type ="
xs :double"
use ="
optional "
default ="
0.2 "/>
<
xs:attribute name ="
simple_ratio "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
isotopeType
Abstract
no
Documentation
Specifies which element should be substituted by which isotope. Empty element means "no substitutions".
Schema Component Representation
<
xs:complexType name ="
isotopeType ">
<
xs:sequence >
</
xs:sequence >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
local_definitionType
Abstract
no
Documentation
Composition based modification definition
XML Instance Representation
<...
title="xs :string[1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
local_definitionType ">
<
xs:sequence >
<
xs:element name ="
Ignore "
type ="
mqm :compositionType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
<
xs:attribute name ="
title "
type ="
xs :string"
use ="
required "/>
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
methodType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
methodType ">
<
xs:sequence >
<
xs:element name ="
component "
type ="
mqm :componentType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
report_ratio "
type ="
mqm :ratioType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
exclusion "
type ="
xs :string"
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
seq "
type ="
mqm :seqType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
comp "
type ="
mqm :compType "
minOccurs ="
0 "/>
</
xs:sequence >
<
xs:attribute name ="
constrain_search "
type ="
xs :boolean"
use ="
optional "
default ="
true "/>
<
xs:attribute name ="
protein_ratio_type "
type ="
mqm :calcType "
use ="
optional "
default ="
average "/>
<
xs:attribute name ="
report_detail "
type ="
xs :boolean"
use ="
optional "
default ="
true "/>
<
xs:attribute name ="
min_num_peptides "
type ="
xs :integer"
use ="
optional "
default ="
2 "/>
<
xs:attribute name ="
show_sub_sets "
type ="
xs :double"
use ="
optional "/>
<
xs:attribute name ="
require_bold_red "
type ="
xs :boolean"
use ="
optional "/>
<
xs:attribute name ="
description "
type ="
xs :string"
use ="
optional "/>
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
modification_groupType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
name="xs :string[0..1] ? " mode="mqm :modeType [1] ? " required="xs :boolean[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
modification_groupType ">
<
xs:sequence >
<
xs:element name ="
mod_file "
type ="
mqm :mod_fileType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
<
xs:element name ="
unmodified "
type ="
mqm :unmodifiedType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
<
xs:attribute name ="
name "
type ="
xs :string"
use ="
optional "/>
<
xs:attribute name ="
mode "
type ="
mqm :modeType "
use ="
required "/>
<
xs:attribute name ="
required "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
moverzType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
moverzType ">
<
xs:attribute name ="
monoisotopic "
type ="
mqm :massType "
use ="
required "/>
<
xs:attribute name ="
average "
type ="
mqm :massType "
use ="
required "/>
</
xs:complexType >
Super-types:
parametersType
< multiplexType (by extension)
Sub-types:
None
Name
multiplexType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
exclude_internal_label="xs :boolean[0..1] ? " ion_intensity_threshold="xs :double[0..1] ? " exclude_isobaric_fragments="xs :boolean[0..1] ? " min_ion_pairs="xs :integer[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
multiplexType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:sequence >
<
xs:element name ="
ion_series "
type ="
mqm :ionSeriesType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
<
xs:attribute name ="
exclude_internal_label "
type ="
xs :boolean"
use ="
optional "
default ="
true "/>
<
xs:attribute name ="
ion_intensity_threshold "
type ="
xs :double"
use ="
optional "
default ="
0.1 "/>
<
xs:attribute name ="
exclude_isobaric_fragments "
type ="
xs :boolean"
use ="
optional "
default ="
true "/>
<
xs:attribute name ="
min_ion_pairs "
type ="
xs :integer"
use ="
optional "
default ="
4 "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
compositionType
< NeutralLossType (by extension)
Sub-types:
None
Name
NeutralLossType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
flag="xs :boolean[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
NeutralLossType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :compositionType ">
<
xs:attribute name ="
flag "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
parametersType
< normalisationType (by extension)
Sub-types:
None
Name
normalisationType
Abstract
no
Documentation
Choice of lists of peptide sequences or protein accessions. If an element of either is defined, then normalisation is based on the specified peptide(s) or protein(s) rather than complete dataset. For example, if protein was set to ALBU_BOVIN, and this was found in the search, then normalisation would ensure that the protein ratio for this protein was 1. Cannot have both peptides and proteins, only one list can be populated. If peptide or protein not in report, then no normalisation.
Schema Component Representation
<
xs:complexType name ="
normalisationType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:choice minOccurs ="
0 ">
</
xs:choice >
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
xs :string < numerator_denominatorType (by extension)
Sub-types:
None
Name
numerator_denominatorType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
name="xs :string[1] ? " coefficient="xs :double[0..1] ? " >
xs :string </...>
Schema Component Representation
<
xs:complexType name ="
numerator_denominatorType ">
<
xs:simpleContent >
<
xs:extension base ="
xs :string">
<
xs:attribute name ="
name "
type ="
xs :string"
use ="
required "/>
<
xs:attribute name ="
coefficient "
type ="
xs :double"
use ="
optional "
default ="
1.0 "/>
</
xs:extension >
</
xs:simpleContent >
</
xs:complexType >
Super-types:
parametersType
< outliersType (by extension)
Sub-types:
None
Name
outliersType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
outliersType ">
<
xs:complexContent >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
Name
parametersType
Abstract
no
Documentation
Parameter name and value pair
Schema Component Representation
<
xs:complexType name ="
parametersType ">
<
xs:sequence >
<
xs:element name ="
parameter "
type ="
mqm :parameterType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
</
xs:complexType >
Super-types:
xs :anySimpleType < parameterType (by extension)
Sub-types:
None
Name
parameterType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
parameterType ">
<
xs:simpleContent >
<
xs:extension base ="
xs :anySimpleType">
<
xs:attribute name ="
description "
type ="
xs :string"
use ="
optional "/>
</
xs:extension >
</
xs:simpleContent >
</
xs:complexType >
Super-types:
compositionType
< PepNeutralLossType (by extension)
Sub-types:
None
Name
PepNeutralLossType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
required="xs :boolean[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
PepNeutralLossType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :compositionType ">
<
xs:attribute name ="
required "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
peptidesType
Abstract
no
Documentation
Peptide sequence(s) to be used for normalisation
Schema Component Representation
<
xs:complexType name ="
peptidesType ">
<
xs:sequence >
<
xs:element name ="
peptide "
type ="
mqm :peptideType "
maxOccurs ="
unbounded "/>
</
xs:sequence >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
peptideType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
sequence="xs :string[0..1] ? " />
Schema Component Representation
<
xs:complexType name ="
peptideType ">
<
xs:attribute name ="
sequence "
type ="
xs :string"/>
</
xs:complexType >
Super-types:
parametersType
< precursorType (by extension)
Sub-types:
None
Name
precursorType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
allow_mass_time_match="xs :boolean[1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
precursorType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:attribute name ="
allow_mass_time_match "
type ="
xs :boolean"
use ="
required "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
proteinsType
Abstract
no
Documentation
Protein accession(s) to be used for normalisation
Schema Component Representation
<
xs:complexType name ="
proteinsType ">
<
xs:sequence >
<
xs:element name ="
protein "
type ="
mqm :proteinType "
maxOccurs ="
unbounded "/>
</
xs:sequence >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
proteinType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
accession="xs :string[0..1] ? " />
Schema Component Representation
<
xs:complexType name ="
proteinType ">
<
xs:attribute name ="
accession "
type ="
xs :string"/>
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
protocolType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...>
Start Choice [1] End Choice </...>
Schema Component Representation
<
xs:complexType name ="
protocolType ">
</
xs:complexType >
Super-types:
parametersType
< qualityType (by extension)
Sub-types:
None
Name
qualityType
Abstract
no
Documentation
Type created to simplify xml validation
XML Instance Representation
<...
min_precursor_charge="xs :integer[0..1] ? " isolated_precursor="xs :boolean[0..1] ? " minimum_a1="xs :double[0..1] ? " pep_threshold_type="mqm :thresholdType [0..1] ? " pep_threshold_value="xs :double[0..1] ? " unique_pepseq="xs :boolean[0..1] ? " isolated_precursor_threshold="xs :double[0..1] ? " total_intensity="xs :boolean[0..1] ? " total_intensity_threshold="xs :double[0..1] ? " >
</...>
Schema Component Representation
<
xs:complexType name ="
qualityType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:attribute name ="
min_precursor_charge "
type ="
xs :integer"
use ="
optional "
default ="
1 "/>
<
xs:attribute name ="
isolated_precursor "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
<
xs:attribute name ="
minimum_a1 "
type ="
xs :double"
use ="
optional "
default ="
0.0 "/>
<
xs:attribute name ="
pep_threshold_type "
type ="
mqm :thresholdType "
use ="
optional "
default ="
maximum expect "/>
<
xs:attribute name ="
pep_threshold_value "
type ="
xs :double"
use ="
optional "
default ="
0.05 "/>
<
xs:attribute name ="
unique_pepseq "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
<
xs:attribute name ="
isolated_precursor_threshold "
type ="
xs :double"
use ="
optional "
default ="
0.5 "/>
<
xs:attribute name ="
total_intensity "
type ="
xs :boolean"
use ="
optional "
default ="
false "/>
<
xs:attribute name ="
total_intensity_threshold "
type ="
xs :double"
use ="
optional "
default ="
0 "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
quantitationType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
quantitationType ">
<
xs:sequence >
<
xs:element name ="
method "
type ="
mqm :methodType "
maxOccurs ="
unbounded ">
<
xs:unique name ="
component_name_unique ">
<xs:selector xpath ="mqm:component "/>
<xs:field xpath ="@name "/>
</
xs:unique >
<
xs:key name ="
component_name_key ">
<xs:selector xpath ="mqm:component "/>
<xs:field xpath ="@name "/>
</
xs:key >
<
xs:unique name ="
report_ratio_name_unique ">
<xs:selector xpath ="mqm:report_ratio "/>
<xs:field xpath ="@name "/>
</
xs:unique >
<
xs:keyref name ="
report_ratio_numerator_constraint "
refer ="
mqm :component_name_key ">
<xs:selector xpath ="mqm:report_ratio/mqm:numerator_component "/>
<xs:field xpath ="@name "/>
</
xs:keyref >
<
xs:keyref name ="
report_ratio_denominator_constraint "
refer ="
mqm :component_name_key ">
<xs:selector xpath ="mqm:report_ratio/mqm:denominator_component "/>
<xs:field xpath ="@name "/>
</
xs:keyref >
</
xs:element >
</
xs:sequence >
<
xs:attribute name ="
majorVersion "
type ="
xs :unsignedShort"
use ="
required "
fixed ="
2 "/>
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
ratioType
Abstract
no
Documentation
A ratio to be reported
Schema Component Representation
<
xs:complexType name ="
ratioType ">
<
xs:sequence >
</
xs:sequence >
</
xs:complexType >
Super-types:
parametersType
< replicateType (by extension)
Sub-types:
None
Name
replicateType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
replicateType ">
<
xs:complexContent >
</
xs:complexContent >
</
xs:complexType >
Super-types:
parametersType
< reporterType (by extension)
Sub-types:
None
Name
reporterType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
reporterType ">
<
xs:complexContent >
<
xs:extension base ="
mqm :parametersType ">
<
xs:attribute name ="
reporter_tol "
type ="
xs :double"
use ="
optional "/>
</
xs:extension >
</
xs:complexContent >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
satelliteType
Abstract
no
Documentation
Modification group that defines satellite peaks to be summed into the heaviest component to correct for Arg-Pro conversion of SILAC label.
Schema Component Representation
<
xs:complexType name ="
satelliteType ">
<
xs:sequence >
</
xs:sequence >
</
xs:complexType >
Super-types:
None
Sub-types:
None
Name
specificityType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
specificityType ">
<
xs:sequence >
<
xs:element name ="
NeutralLoss "
type ="
mqm :NeutralLossType "
minOccurs ="
0 "
maxOccurs ="
unbounded "/>
</
xs:sequence >
<
xs:attribute name ="
site "
type ="
mqm :siteType "
use ="
required "/>
</
xs:complexType >
Super-types:
xs :string < unmodifiedType (by extension)
Sub-types:
None
Name
unmodifiedType
Abstract
no
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:complexType name ="
unmodifiedType ">
<
xs:simpleContent >
<
xs:extension base ="
xs :string">
<
xs:attribute name ="
site "
type ="
mqm :siteType "
use ="
required "/>
</
xs:extension >
</
xs:simpleContent >
</
xs:complexType >
Super-types:
xs :string < averageSelectionType (by restriction)
Sub-types:
None
Name
averageSelectionType
Content
value comes from list: {'unique_sequence'|'unique_mr'|'unique_mz'}
Documentation
List of allowed values for selection-attribute
Schema Component Representation
<
xs:simpleType name ="
averageSelectionType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="unique_sequence "/>
<xs:enumeration value ="unique_mr "/>
<xs:enumeration value ="unique_mz "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < calcType (by restriction)
Sub-types:
None
Name
calcType
Content
value comes from list: {'median'|'average'|'weighted'}
Documentation
How to calculate a ratio for a protein
Schema Component Representation
<
xs:simpleType name ="
calcType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="median "/>
<xs:enumeration value ="average "/>
<xs:enumeration value ="weighted "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < componentNameType (by restriction)
Sub-types:
None
Name
componentNameType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
componentNameType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < compType (by restriction)
Sub-types:
None
Name
compType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
compType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="4 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < correctionTypeType (by restriction)
Sub-types:
None
Name
correctionTypeType
Content
value comes from list: {'AB certificate'|'averagine'|'impurity'}
Documentation
Isotope correction factor
Schema Component Representation
<
xs:simpleType name ="
correctionTypeType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="AB certificate "/>
<xs:enumeration value ="averagine "/>
<xs:enumeration value ="impurity "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < elementType (by restriction)
Sub-types:
None
Name
elementType
Content
Documentation
symbols for elements
Schema Component Representation
<
xs:simpleType name ="
elementType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="0 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < emptyType (by restriction)
Sub-types:
None
Name
emptyType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
emptyType ">
<
xs:restriction base ="
xs :string">
<xs:maxLength value ="0 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :integer < file_indexType (by restriction)
Sub-types:
None
Name
file_indexType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
file_indexType ">
<
xs:restriction base ="
xs :integer">
<xs:minInclusive value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < integrationMethodType (by restriction)
Sub-types:
None
Name
integrationMethodType
Content
value comes from list: {'none'|'simpsons'|'trapezium'}
Documentation
Integration method
Schema Component Representation
<
xs:simpleType name ="
integrationMethodType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="none "/>
<xs:enumeration value ="simpsons "/>
<xs:enumeration value ="trapezium "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < ionSeriesType (by restriction)
Sub-types:
None
Name
ionSeriesType
Content
value comes from list: {'a'|'b'|'c'|'x'|'y'|'z'|'z+1'|'z+2'}
Documentation
Symbols for sequence ion series
Schema Component Representation
<
xs:simpleType name ="
ionSeriesType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="a "/>
<xs:enumeration value ="b "/>
<xs:enumeration value ="c "/>
<xs:enumeration value ="x "/>
<xs:enumeration value ="y "/>
<xs:enumeration value ="z "/>
<xs:enumeration value ="z+1 "/>
<xs:enumeration value ="z+2 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :double < massType (by restriction)
Sub-types:
None
Name
massType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
massType ">
<
xs:restriction base ="
xs :double">
<xs:minInclusive value ="0.0 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < methodNameType (by restriction)
Sub-types:
None
Name
methodNameType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
methodNameType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :unsignedShort < minorVersion_t (by restriction)
Sub-types:
None
Name
minorVersion_t
Content
Base XSD Type: unsignedShort
Documentation
Schema minor version number
Schema Component Representation
<
xs:simpleType name ="
minorVersion_t ">
<
xs:restriction base ="
xs :unsignedShort">
<xs:maxInclusive value ="4 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < mod_fileType (by restriction)
Sub-types:
None
Name
mod_fileType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
mod_fileType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < modeType (by restriction)
Sub-types:
None
Name
modeType
Content
value comes from list: {'fixed'|'variable'|'exclusive'}
Documentation
Specificity for a group of modifications
Schema Component Representation
<
xs:simpleType name ="
modeType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="fixed "/>
<xs:enumeration value ="variable "/>
<xs:enumeration value ="exclusive "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < modification_groupNameType (by restriction)
Sub-types:
None
Name
modification_groupNameType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
modification_groupNameType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < normaliseType (by restriction)
Sub-types:
None
Name
normaliseType
Content
value comes from list: {'none'|'sum'|'average'|'median'}
Documentation
normalisation method
Schema Component Representation
<
xs:simpleType name ="
normaliseType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="none "/>
<xs:enumeration value ="sum "/>
<xs:enumeration value ="average "/>
<xs:enumeration value ="median "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < outlierType (by restriction)
Sub-types:
None
Name
outlierType
Content
value comes from list: {'none'|'dixons'|'auto'|'grubbs'|'rosners'}
Documentation
method of detecting outliers
Schema Component Representation
<
xs:simpleType name ="
outlierType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="none "/>
<xs:enumeration value ="dixons "/>
<xs:enumeration value ="auto "/>
<xs:enumeration value ="grubbs "/>
<xs:enumeration value ="rosners "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < parameterNameType (by restriction)
Sub-types:
None
Name
parameterNameType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
parameterNameType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < positionType (by restriction)
Sub-types:
None
Name
positionType
Content
value comes from list: {'Anywhere'|'Any N-term'|'Any C-term'|'Protein N-term'|'Protein C-term'}
Documentation
Unimod position
Schema Component Representation
<
xs:simpleType name ="
positionType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="Anywhere "/>
<xs:enumeration value ="Any N-term "/>
<xs:enumeration value ="Any C-term "/>
<xs:enumeration value ="Protein N-term "/>
<xs:enumeration value ="Protein C-term "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < proteinScoreType (by restriction)
Sub-types:
None
Name
proteinScoreType
Content
value comes from list: {'standard'|'mudpit'}
Documentation
Mascot protein score method
Schema Component Representation
<
xs:simpleType name ="
proteinScoreType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="standard "/>
<xs:enumeration value ="mudpit "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < ratioNameType (by restriction)
Sub-types:
None
Name
ratioNameType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
ratioNameType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < reporterTolUnitType (by restriction)
Sub-types:
None
Name
reporterTolUnitType
Content
value comes from list: {'Da'|'ppm'|'mmu'|'%'}
Documentation
Units for reporter_tol
Schema Component Representation
<
xs:simpleType name ="
reporterTolUnitType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="Da "/>
<xs:enumeration value ="ppm "/>
<xs:enumeration value ="mmu "/>
<xs:enumeration value ="% "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < scanType (by restriction)
Sub-types:
None
Name
scanType
Content
value comes from list: {'survey'|'zoom'|'header'|'fragments'|'mrm'}
Documentation
Data source for integration
Schema Component Representation
<
xs:simpleType name ="
scanType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="survey "/>
<xs:enumeration value ="zoom "/>
<xs:enumeration value ="header "/>
<xs:enumeration value ="fragments "/>
<xs:enumeration value ="mrm "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < seqType (by restriction)
Sub-types:
None
Name
seqType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
seqType ">
<
xs:restriction base ="
xs :string">
<xs:minLength value ="2 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :double < sig_threshold_valueType (by restriction)
Sub-types:
None
Name
sig_threshold_valueType
Content
Documentation
Type created to simplify xml validation
Schema Component Representation
<
xs:simpleType name ="
sig_threshold_valueType ">
<
xs:restriction base ="
xs :double">
<xs:minInclusive value ="1E-18 "/>
<xs:maxInclusive value ="1 "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < siteType (by restriction)
Sub-types:
None
Name
siteType
Content
value comes from list: {'A'|'C'|'D'|'E'|'F'|'G'|'H'|'I'|'J'|'K'|'L'|'M'|'N'|'O'|'P'|'Q'|'R'|'S'|'T'|'U'|'V'|'W'|'Y'|'N-term'|'C-term'}
Documentation
Unimod site
Schema Component Representation
<
xs:simpleType name ="
siteType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="A "/>
<xs:enumeration value ="C "/>
<xs:enumeration value ="D "/>
<xs:enumeration value ="E "/>
<xs:enumeration value ="F "/>
<xs:enumeration value ="G "/>
<xs:enumeration value ="H "/>
<xs:enumeration value ="I "/>
<xs:enumeration value ="J "/>
<xs:enumeration value ="K "/>
<xs:enumeration value ="L "/>
<xs:enumeration value ="M "/>
<xs:enumeration value ="N "/>
<xs:enumeration value ="O "/>
<xs:enumeration value ="P "/>
<xs:enumeration value ="Q "/>
<xs:enumeration value ="R "/>
<xs:enumeration value ="S "/>
<xs:enumeration value ="T "/>
<xs:enumeration value ="U "/>
<xs:enumeration value ="V "/>
<xs:enumeration value ="W "/>
<xs:enumeration value ="Y "/>
<xs:enumeration value ="N-term "/>
<xs:enumeration value ="C-term "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < thresholdType (by restriction)
Sub-types:
None
Name
thresholdType
Content
value comes from list: {'minimum score'|'maximum expect'|'at least identity'|'at least homology'}
Documentation
Significance threshold for peptide matches
Schema Component Representation
<
xs:simpleType name ="
thresholdType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="minimum score "/>
<xs:enumeration value ="maximum expect "/>
<xs:enumeration value ="at least identity "/>
<xs:enumeration value ="at least homology "/>
</
xs:restriction >
</
xs:simpleType >
Super-types:
xs :string < timeUnitType (by restriction)
Sub-types:
None
Name
timeUnitType
Content
value comes from list: {'seconds'|'minutes'|'%'|'ppm'}
Documentation
time units
Schema Component Representation
<
xs:simpleType name ="
timeUnitType ">
<
xs:restriction base ="
xs :string">
<xs:enumeration value ="seconds "/>
<xs:enumeration value ="minutes "/>
<xs:enumeration value ="% "/>
<xs:enumeration value ="ppm "/>
</
xs:restriction >
</
xs:simpleType >
Complex Type:
Schema Component Type
AusAddress Schema Component Name
Super-types:
Address < AusAddress (by extension)
Sub-types:
QLDAddress (by restriction)
If this schema component is a type definition, its type hierarchy is shown in a gray-bordered box.
The table above displays the properties of this schema component.
XML Instance Representation
<...
country="Australia "
>
<unitNo> string </unitNo> [0..1]
<houseNo> string </houseNo> [1]
<street> string </street> [1]
Start Choice
[1]
<city> string </city> [1]
<town> string </town> [1]
End Choice
<state> AusStates </state> [1] <postcode> string <<pattern = [1-9][0-9]{3}>> </postcode> [1]
?
</...>
The XML Instance Representation table above shows the schema component's content as an XML instance.
The minimum and maximum occurrence of elements and attributes are provided in square brackets, e.g. [0..1].
Model group information are shown in gray, e.g. Start Choice ... End Choice.
For type derivations, the elements and attributes that have been added to or changed from the base type's content are shown in bold .
If an element/attribute has a fixed value, the fixed value is shown in green, e.g. country="Australia".
Otherwise, the type of the element/attribute is displayed.
If the element/attribute's type is in the schema, a link is provided to it.
For local simple type definitions, the constraints are displayed in angle brackets, e.g. <<pattern = [1-9][0-9]{3}>>.
If a local element/attribute has documentation, it will be displayed in a window that pops up when the question mark inside the attribute or next to the element is clicked, e.g. <postcode>.
Schema Component Representation
<complexType
name ="AusAddress "> <complexContent > <extension
base ="Address <sequence > <element
name ="state " type ="AusStates <element
name ="postcode "> <simpleType > <restriction
base ="string <pattern
value ="[1-9][0-9]{3} "/> </restriction > </simpleType > </element > </sequence > <attribute
name ="country " type ="string fixed ="Australia "/> </extension > </complexContent > </complexType >
The Schema Component Representation table above displays the underlying XML representation of the schema component. (Annotations are not shown.)
Abstract (Applies to complex type definitions and element declarations). An abstract element or complex type cannot used to validate an element instance. If there is a reference to an abstract element, only element declarations that can substitute the abstract element can be used to validate the instance. For references to abstract type definitions, only derived types can be used.
All Model Group Child elements can be provided in any order in instances. See: http://www.w3.org/TR/xmlschema-1/#element-all .
Choice Model Group
Only one from the list of child elements and model groups can be provided in instances. See: http://www.w3.org/TR/xmlschema-1/#element-choice .
Collapse Whitespace Policy Replace tab, line feed, and carriage return characters with space character (Unicode character 32). Then, collapse contiguous sequences of space characters into single space character, and remove leading and trailing space characters.
Disallowed Substitutions (Applies to element declarations). If substitution is specified, then substitution group members cannot be used in place of the given element declaration to validate element instances. If derivation methods , e.g. extension, restriction, are specified, then the given element declaration will not validate element instances that have types derived from the element declaration's type using the specified derivation methods. Normally, element instances can override their declaration's type by specifying an xsi:type attribute.
Key Constraint Like Uniqueness Constraint , but additionally requires that the specified value(s) must be provided. See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions .
Key Reference Constraint Ensures that the specified value(s) must match value(s) from a Key Constraint or Uniqueness Constraint . See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions .
Model Group Groups together element content, specifying the order in which the element content can occur and the number of times the group of element content may be repeated. See: http://www.w3.org/TR/xmlschema-1/#Model_Groups .
Nillable (Applies to element declarations). If an element declaration is nillable, instances can use the xsi:nil attribute. The xsi:nil attribute is the boolean attribute, nil , from the http://www.w3.org/2001/XMLSchema-instance namespace. If an element instance has an xsi:nil attribute set to true, it can be left empty, even though its element declaration may have required content.
Notation A notation is used to identify the format of a piece of data. Values of elements and attributes that are of type, NOTATION, must come from the names of declared notations. See: http://www.w3.org/TR/xmlschema-1/#cNotation_Declarations .
Preserve Whitespace Policy Preserve whitespaces exactly as they appear in instances.
Prohibited Derivations (Applies to type definitions). Derivation methods that cannot be used to create sub-types from a given type definition.
Prohibited Substitutions (Applies to complex type definitions). Prevents sub-types that have been derived using the specified derivation methods from validating element instances in place of the given type definition.
Replace Whitespace Policy Replace tab, line feed, and carriage return characters with space character (Unicode character 32).
Sequence Model Group Child elements and model groups must be provided in the specified order in instances. See: http://www.w3.org/TR/xmlschema-1/#element-sequence .
Substitution Group Elements that are members of a substitution group can be used wherever the head element of the substitution group is referenced.
Substitution Group Exclusions (Applies to element declarations). Prohibits element declarations from nominating themselves as being able to substitute a given element declaration, if they have types that are derived from the original element's type using the specified derivation methods.
Target Namespace The target namespace identifies the namespace that components in this schema belongs to. If no target namespace is provided, then the schema components do not belong to any namespace.
Uniqueness Constraint Ensures uniqueness of an element/attribute value, or a combination of values, within a specified scope. See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions .