Overview
Package
Class
Use
Tree
Deprecated
Index
Help
PREV LETTER
NEXT LETTER
FRAMES
NO FRAMES
All Classes
A
B
C
D
E
F
G
H
I
K
L
M
N
O
P
Q
R
S
T
U
V
W
M
maf
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Fields for user entered thresholds
MAF_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
The default minor allelic frequency
mafButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Buttons to flag user specified thresholds
main(String[])
- Static method in class edu.harvard.mgh.purcell.gCLINE.data.
FileInfo
main(String[])
- Static method in class edu.harvard.mgh.purcell.gCLINE.tester.
TestFrame
The main fuction that is where it all starts
main(String[])
- Static method in class edu.harvard.mgh.purcell.gPLINK2.
GPLINK
The main fuction that is where it all starts
makeBin
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
GenFileSet
makeBin
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge
makeVisible()
- Method in class edu.harvard.mgh.purcell.gCLINE.general.
Configure
mapBrowse
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
InputPane
A BrowseButton that selects the map file.
mapBrowse
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.TextSelectPanel
mapButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.
OpenHapDialog
A JButton that triggers a browse for the map/bim file.
mapField
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
InputPane
A JTextField that holds the map file name.
mapField
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.TextSelectPanel
mapFile
- Variable in class edu.harvard.mgh.purcell.gPLINK2.
OpenHapDialog
A JTextField that holds the map/bim file names.
mapSuffex
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.
OpenHapDialog
A String array that holds all the suffix's that flag a map/bim file.
matButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
FamAssoc
matchBrowse
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
matchButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
matchTBrowse
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
matchTButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
matchText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
matchTText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
max_line_length
- Static variable in class edu.harvard.mgh.purcell.gCLINE.general.
ErrorManager
The maximum number of characters per line.
maxMaf
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Fields for user entered thresholds
MAXMAF_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
The default maximum minor allelic frequency
maxMafButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Buttons to flag user specified thresholds
mBestButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
mcButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
mcc1Text
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
mcc2Text
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
mccButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
mcText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Clustering
mDomButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
MendelErr
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
MendelErr(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
MendelErr
mendell
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Fields for user entered thresholds
mendell2
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Fields for user entered thresholds
mendellButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Buttons to flag user specified thresholds
menu
- Variable in class edu.harvard.mgh.purcell.gPLINK2.
GPLINK
The menu bar for our gPLINK window.
MenuBarMain
- Class in
edu.harvard.mgh.purcell.gCLINE.tester
Create a menu bar that will hold both the general project menu and the command specific forms.
MenuBarMain(TestFrame, Configure)
- Constructor for class edu.harvard.mgh.purcell.gCLINE.tester.
MenuBarMain
Merge
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
Merge two file sets.
Merge(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge
Merge.BinSelectPanel
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
Merge.BinSelectPanel(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.BinSelectPanel
Merge.ListSelectPanel
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
Merge.ListSelectPanel(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.ListSelectPanel
Merge.TextSelectPanel
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
Merge.TextSelectPanel(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.TextSelectPanel
mergeInputs
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge
messanger
- Variable in class edu.harvard.mgh.purcell.gCLINE.
StartFrame
The error manager for this gui.
META_FILE
- Static variable in interface edu.harvard.mgh.purcell.gCLINE.data.
KeyWords
String that identifies the file extention for
mfilterField
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
FilterDialog
mGenButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
mh2Button
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
StratAnaly
mhButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
StratAnaly
mind
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Fields for user entered thresholds
MIND_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
The default maximum per-person missing
mindButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
ThresholdDialog
Buttons to flag user specified thresholds
mishapNum
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Missing
A JTextField holding the --mishap-window arguemnt.
Missing
- Class in
edu.harvard.mgh.purcell.gPLINK2.forms
Create a Form to test for missing data using PLINK "--missing".
Missing(GPLINK)
- Constructor for class edu.harvard.mgh.purcell.gPLINK2.forms.
Missing
Create a Missing form.
mpButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
SetAssoc
mperm2Button
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
mperm2Text
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
MPERM_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
AlleleAssoc
The default mperm perameter is 1000
MPERM_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
MPERM_DEFAULT
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
FamAssoc
mpermButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
AlleleAssoc
Flag the --mperm option
mpermButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
FamAssoc
mpermText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
AlleleAssoc
Allow the user to set the --mperm perameter
mpermText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
FamAssoc
mphenoText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
InputPane
A JTextField that contains the column you wish to use on the alternative pheotype file.
mpText
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
SetAssoc
mRecButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
mTrendButton
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
CCAssoc
my_alignment
- Static variable in class edu.harvard.mgh.purcell.gPLINK2.baseForm.
InputPane
my_alignment
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.BinSelectPanel
my_alignment
- Variable in class edu.harvard.mgh.purcell.gPLINK2.forms.
Merge.TextSelectPanel
myArrayString(String[])
- Method in class edu.harvard.mgh.purcell.gCLINE.
HierarchyDialog
myConfig
- Variable in class edu.harvard.mgh.purcell.gCLINE.tester.
MenuBarMain
myLock
- Variable in class edu.harvard.mgh.purcell.gCLINE.data.
Record
Locking information for the folder
myTree
- Variable in class edu.harvard.mgh.purcell.gCLINE.pane.
OpView
JTree to show the Record
Overview
Package
Class
Use
Tree
Deprecated
Index
Help
PREV LETTER
NEXT LETTER
FRAMES
NO FRAMES
All Classes
A
B
C
D
E
F
G
H
I
K
L
M
N
O
P
Q
R
S
T
U
V
W