Package | Description |
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com.compomics.util.experiment.biology |
Experiment classes related to biological entities.
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com.compomics.util.experiment.biology.atoms |
The atom classes.
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com.compomics.util.gui.atoms |
Atoms GUI dialogs.
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Modifier and Type | Field and Description |
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static Atom |
Atom.C
The carbon atom.
|
static Atom |
Atom.H
The hydrogen atom.
|
static Atom |
Atom.He
The helium atom.
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static Atom |
Atom.I
The Iodine atom.
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static Atom |
Atom.Li
The phosphorus atom.
|
static Atom |
Atom.N
The nitrogen atom.
|
static Atom |
Atom.Na
The sodium atom.
|
static Atom |
Atom.O
The oxygen atom.
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static Atom |
Atom.P
The phosphorus atom.
|
static Atom |
Atom.S
The sulfur atom.
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static Atom |
Atom.Se
The selenium atom.
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Modifier and Type | Method and Description |
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Atom |
AtomImpl.getAtom()
Returns the atom.
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static Atom |
Atom.getAtom(String shortName)
Returns the atom corresponding to the given short name.
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Modifier and Type | Method and Description |
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int |
AtomChain.getOccurrence(Atom atom,
Integer isotope)
Returns the occurrence of a given atom in the chain.
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void |
AtomChain.remove(Atom atom,
Integer isotope)
Removes all the occurrences of the given atom.
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void |
AtomChain.setOccurrence(Atom atom,
Integer isotope,
Integer occurrence)
Sets the occurrence of a given atom.
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Constructor and Description |
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AtomImpl(Atom atom,
Integer isotope)
Constructor.
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Modifier and Type | Class and Description |
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class |
Carbon
Carbon.
|
class |
Helium
The helium atom.
|
class |
Hydrogen
The hydrogen atom.
|
class |
Iodine
Iodine.
|
class |
Lithium
The Lithium atom.
|
class |
Nitrogen
The nitrogen atom.
|
class |
Oxygen
The oxygen atom.
|
class |
Phosphorus
The phosphorus atom.
|
class |
Selenium
Selenium.
|
class |
Sodium
The sodium atom.
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class |
Sulfur
The sulfur atom.
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Modifier and Type | Method and Description |
---|---|
Atom |
AtomPanel.getAtom()
Returns the currently selected atom.
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Constructor and Description |
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AtomPanel(AtomChainDialog atomChainDialog,
Atom atom,
int isotope,
int occurrence,
int panelIndex,
boolean addOnly)
Creates a new AtomPanel.
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