Uses of Class
edu.harvard.mgh.purcell.gPLINK2.GPLINK

Packages that use GPLINK
edu.harvard.mgh.purcell.gPLINK2   
edu.harvard.mgh.purcell.gPLINK2.baseForm   
edu.harvard.mgh.purcell.gPLINK2.data   
edu.harvard.mgh.purcell.gPLINK2.forms   
 

Uses of GPLINK in edu.harvard.mgh.purcell.gPLINK2
 

Fields in edu.harvard.mgh.purcell.gPLINK2 declared as GPLINK
private  GPLINK PLINK_Execute.frame
          The GPLINK instance we want to store the operation in.
private  GPLINK PLINK_Config.frame
           
private  GPLINK PlinkMenuBar.frame
          A GPLINK that this menu bar is attached to.
private  GPLINK OpenHapDialog.frame
          The GPLINK instance this dialog is attached to.
private  GPLINK PLINK_Open.parent
          The JFrame of the program.
 

Constructors in edu.harvard.mgh.purcell.gPLINK2 with parameters of type GPLINK
AddGenericOp(GPLINK mf)
          Create a dialog to add an operation that is not automatically processed by our plink import.
OpenHapDialog(GPLINK mf, java.lang.String givenOp, java.lang.String givenFile)
          Create a Dialog to open a Haploview instance.
PLINK_Config(GPLINK f)
          Create an instance of the configuration dialog.
PLINK_Execute(GPLINK givenFrame, java.lang.String cmd)
          Create an instance of this dialog.
PLINK_Open(GPLINK p)
          Create a dialog that will open up a new project and establish an ssh connection.
PLINK_Open(GPLINK f, java.lang.String local)
          Create a dialog that will open a new Project.
PLINK_Open(GPLINK f, java.lang.String local, java.lang.String givenRemote, java.lang.String givenHost, java.lang.String givenUser, java.lang.String givenPort)
          Create a dialog that will open a new Project.
PlinkMenuBar(GPLINK givenFrame)
          Create an instance of this plink specific menu bar.
 

Uses of GPLINK in edu.harvard.mgh.purcell.gPLINK2.baseForm
 

Fields in edu.harvard.mgh.purcell.gPLINK2.baseForm declared as GPLINK
private  GPLINK InputPane.parent
          The GPLINK istance this is attached to.
 GPLINK Form.parent
          The GPLINK instance that this form is attached to.
 

Constructors in edu.harvard.mgh.purcell.gPLINK2.baseForm with parameters of type GPLINK
Form(GPLINK p, java.lang.String name)
           
InputPane(GPLINK p, Form p2)
          Create an input pane for PLINK forms.
 

Uses of GPLINK in edu.harvard.mgh.purcell.gPLINK2.data
 

Constructors in edu.harvard.mgh.purcell.gPLINK2.data with parameters of type GPLINK
Project(GPLINK f)
           
Project(GPLINK f, java.lang.String localName)
           
Project(GPLINK f, java.lang.String localName, java.lang.String remoteFileName, java.lang.String hostname, java.lang.String username, java.lang.String portnum, com.sshtools.j2ssh.SshClient c)
           
 

Uses of GPLINK in edu.harvard.mgh.purcell.gPLINK2.forms
 

Constructors in edu.harvard.mgh.purcell.gPLINK2.forms with parameters of type GPLINK
AlleleAssoc(GPLINK mf)
          Create and show an allelic assocation test form.
AlleleFreq(GPLINK mf)
          creates a new Allele frequency form.
Basic(GPLINK p)
          Create a form that will allow the user to select which fileset they want to validate and what they want to call the output files.
CCAssoc(GPLINK mf)
           
Clustering(GPLINK mf)
          create a show a new Clustering Form
FamAssoc(GPLINK mf)
           
GenFileSet(GPLINK mf)
           
HapCCAssoc(GPLINK mf)
          Create a Haplotype-based C/C test
HaploFreq(GPLINK mf)
           
HaploPhase(GPLINK mf)
           
HapTDTAssoc(GPLINK mf)
          Create this form.
HardyWinEq(GPLINK mf)
          Create a hardy-Weinburg form.
HomozRuns(GPLINK mf)
           
IBSdist(GPLINK mf)
          Form constructer.
IndHetz(GPLINK mf)
           
MendelErr(GPLINK mf)
           
Merge.BinSelectPanel(GPLINK mf)
           
Merge.ListSelectPanel(GPLINK mf)
           
Merge.TextSelectPanel(GPLINK mf)
           
Merge(GPLINK mf)
           
Missing(GPLINK mf)
          Create a Missing form.
NearNeigh(GPLINK mf)
          Create the form.
QuantTrtInt(GPLINK mf)
          Create a form.
Regression(GPLINK mf)
           
SetAssoc(GPLINK mf)
          Create the set based association form.
StratAnaly(GPLINK mf)
           
Validate(GPLINK p)
          Create a form that will allow the user to select which fileset they want to validate and what they want to call the output files.