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java.lang.Object jp.sbi.celldesigner.plugin.PluginSBase jp.sbi.celldesigner.plugin.PluginModificationRegion
public class PluginModificationRegion
Class for region. An instance corresponds a <region> tag.
CellDesigner extention of SBML definition
region |
id : SId name : string {use="optional"} type : string {use="optional"} size : double {use="optional"} pos : double {use="optional"} |
The "id" which may a SId type string in the SBML definition, is treated as a String. When it is input or output, format check is done. If it fails, an SIdFormatException is thrown.
Field Summary | |
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static double |
MINIMUM_SIZE_ANY
constants for minimum size |
static double |
MINIMUM_SIZE_DNAMETYLATION
constants for minimum size |
static double |
MINIMUM_SIZE_EMPTY
constants for minimum size |
static java.lang.String |
TYPE_CODING_REGION
|
static java.lang.String |
TYPE_MODIFICATION_SITE
|
static java.lang.String |
TYPE_PROTEIN_BINDING_DOMAIN
constants for type field |
static java.lang.String |
TYPE_REGULATORY_REGION
|
static java.lang.String |
TYPE_TRANSCRIPTION_STARTING_SITE_L
|
static java.lang.String |
TYPE_TRANSCRIPTION_STARTING_SITE_R
|
Fields inherited from class jp.sbi.celldesigner.plugin.PluginSBase |
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sbase |
Constructor Summary | |
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PluginModificationRegion(PluginAntiSenseRNA rna)
Constructor |
|
PluginModificationRegion(PluginGene gene)
Constructor |
|
PluginModificationRegion(PluginRNA rna)
Constructor |
Method Summary | |
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boolean |
getActive()
Gets a state for transcriptional starting site. |
java.lang.String |
getId()
|
java.lang.String |
getName()
|
PluginSBase |
getParentExtensionSBase()
|
java.lang.String |
getParentID()
|
double |
getPos()
|
double |
getSize()
|
java.lang.String |
getType()
|
void |
setActive(boolean active)
Sets a state for transcriptional starting site. |
protected void |
setId(java.lang.String id)
Sets the id of this PluginModificationRegion. |
void |
setName(java.lang.String name)
Sets the name of this PluginModificationRegion |
void |
setPos(double pos)
Sets the position of this PluginModificationRegion. |
void |
setSize(double size)
Sets the size of this PluginModificationRegion |
void |
setType(java.lang.String type)
Sets type of this PluginModificationRegion |
Methods inherited from class jp.sbi.celldesigner.plugin.PluginSBase |
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addCVTerm, ChangeCVTermToMiriamDefinition, getAnnotation, getAnnotationString, getCVTerm, getNotes, getNotesString, getNumCVTerms, getParentSBase, getRelationFromCVTerm, setAnnotation, setAnnotationString, setCVTerm, setNotes, setNotes, setParentSBase, toSBML |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public static final java.lang.String TYPE_PROTEIN_BINDING_DOMAIN
public static final java.lang.String TYPE_MODIFICATION_SITE
public static final java.lang.String TYPE_CODING_REGION
public static final java.lang.String TYPE_REGULATORY_REGION
public static final java.lang.String TYPE_TRANSCRIPTION_STARTING_SITE_L
public static final java.lang.String TYPE_TRANSCRIPTION_STARTING_SITE_R
public static final double MINIMUM_SIZE_EMPTY
public static final double MINIMUM_SIZE_ANY
public static final double MINIMUM_SIZE_DNAMETYLATION
Constructor Detail |
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public PluginModificationRegion(PluginGene gene)
gene
- PluginGenepublic PluginModificationRegion(PluginRNA rna)
rna
- PluginRNApublic PluginModificationRegion(PluginAntiSenseRNA rna)
rna
- PluginAntiSenseRNAMethod Detail |
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public void setName(java.lang.String name)
name
- public java.lang.String getName()
public void setType(java.lang.String type)
type
- the type is the following static field of this PluginModificationRegion:
TYPE_EMPTY, TYPE_PROMOTOR, TYPE_CODING_REGION, TYPE_TRANSCRIPTION_STARTING_POINT_L
TYPE_TRANSCRIPTION_STARTING_POINT_R, TYPE_EXON and TYPE_PROTEIN_BINDING_DOMAINpublic java.lang.String getType()
public void setSize(double size)
size
- public double getSize()
public void setPos(double pos)
pos
- the position of this PluginModificationRegionpublic double getPos()
public java.lang.String getId()
protected void setId(java.lang.String id)
id
- public java.lang.String getParentID()
public PluginSBase getParentExtensionSBase()
public void setActive(boolean active)
active
- public boolean getActive()
|
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