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Nathaniel Glassy 5 months ago
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38 changed files with 5421 additions and 0 deletions
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+ 57 - 0
Subject 17/sub-17_T1w.json

@@ -0,0 +1,57 @@
+{
+	"Modality": "MR",
+	"MagneticFieldStrength": 1.5,
+	"ImagingFrequency": 63.8998,
+	"Manufacturer": "Philips",
+	"ManufacturersModelName": "Achieva",
+	"InstitutionName": "UCSF IMR",
+	"InstitutionalDepartmentName": "Radiology",
+	"DeviceSerialNumber": "08042",
+	"StationName": "MR4",
+	"BodyPartExamined": "OPTIC CANAL",
+	"PatientPosition": "HFS",
+	"ProcedureStepDescription": "MSI",
+	"SoftwareVersions": "2.6.3\\2.6.3.3",
+	"MRAcquisitionType": "3D",
+	"SeriesDescription": "MP-RAGE MSI",
+	"ProtocolName": "MP-RAGE MSI CLEAR",
+	"ScanningSequence": "GR",
+	"SequenceVariant": "MP",
+	"ScanOptions": "OTHER",
+	"ImageType": ["ORIGINAL", "PRIMARY", "M", "FFE", "M", "FFE"],
+	"SeriesNumber": 301,
+	"AcquisitionTime": "15:32:42.920000",
+	"AcquisitionNumber": 3,
+	"PhilipsRescaleSlope": 6.10818,
+	"PhilipsRescaleIntercept": 0,
+	"PhilipsScaleSlope": 0.000215124,
+	"UsePhilipsFloatNotDisplayScaling": 0,
+	"SliceThickness": 1.5,
+	"SpacingBetweenSlices": 1.5,
+	"SAR": 0.0919834,
+	"EchoTime": 0.0038163,
+	"RepetitionTime": 0.0079788,
+	"FlipAngle": 8,
+	"CoilString": "SENSE-Head-6",
+	"PercentPhaseFOV": 75,
+	"PercentSampling": 100,
+	"EchoTrainLength": 192,
+	"PhaseEncodingSteps": 256,
+	"AcquisitionMatrixPE": 256,
+	"ReconMatrixPE": 256,
+	"WaterFatShift": 1.13462,
+	"EstimatedEffectiveEchoSpacing": 2.03739e-05,
+	"EstimatedTotalReadoutTime": 0.00519534,
+	"PixelBandwidth": 191.483,
+	"PhaseEncodingAxis": "i",
+	"ImageOrientationPatientDICOM": [
+		1,
+		0,
+		0,
+		0,
+		0.945894,
+		-0.324477	],
+	"InPlanePhaseEncodingDirectionDICOM": "ROW",
+	"ConversionSoftware": "dcm2niix",
+	"ConversionSoftwareVersion": "v1.0.20210317"
+}

+ 1 - 0
Subject 17/sub-17_T1w.nii

@@ -0,0 +1 @@
+/annex/objects/MD5-s18350432--a8ea57a09cca688f3b3960380bedd15c

+ 49 - 0
Subject 17/sub-17_task-arrow_run-1.ds/BadChannels

@@ -0,0 +1,49 @@
+MLF11
+MLF12
+MLF13
+MLF14
+MLF21
+MLF22
+MLF23
+MLF24
+MLF25
+MLF31
+MLF33
+MLF34
+MLT11
+MLT21
+MLT22
+MLT31
+MLT32
+MLT33
+MLT41
+MLT42
+MLT43
+MLT51
+MLT52
+MRF11
+MRF12
+MRF13
+MRF14
+MRF21
+MRF22
+MRF23
+MRF24
+MRF31
+MRF32
+MRF33
+MRF34
+MRF35
+MRT11
+MRT21
+MRT22
+MRT31
+MRT32
+MRT33
+MRT41
+MRT42
+MRT43
+MRT51
+MRT52
+MZF01
+MZF02

+ 26 - 0
Subject 17/sub-17_task-arrow_run-1.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-17_task-arrow_run-1.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

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+ 1563 - 0
Subject 17/sub-17_task-arrow_run-1.ds/MarkerFile.mrk


BIN
Subject 17/sub-17_task-arrow_run-1.ds/bad.segments


+ 32 - 0
Subject 17/sub-17_task-arrow_run-1.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:31
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 17/sub-17_task-arrow_run-1.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:31  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	3,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,80.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	1,4,1.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,60.00000000000000000,60.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,120.00000000000000000,120.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,180.00000000000000000,180.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,240.00000000000000000,240.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	1,0,1,1
+}

BIN
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.acq


+ 37 - 0
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 6.55167
+	y = 7.72953
+	z = -23.7997
+measured left ear coil position relative to dewar (cm):
+	x = -4.47511
+	y = 5.93135
+	z = -28.0899
+measured right ear coil position relative to dewar (cm):
+	x = 6.73428
+	y = -4.05022
+	z = -28.2778
+measured nasion coil position relative to head (cm):
+	x = 9.73188
+	y = 1.1588e-15
+	z = 3.55271e-15
+measured left ear coil position relative to head (cm):
+	x = 0.401257
+	y = 7.49455
+	z = -4.26326e-14
+measured right ear coil position relative to head (cm):
+	x = -0.401257
+	y = -7.49455
+	z = 4.26326e-14
+

BIN
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.infods


+ 1 - 0
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1925160008--43beec5e8f5b3a51c8dd70b3208c772d

+ 17 - 0
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 17/sub-17_task-arrow_run-1.ds/sub-17_task-arrow_run-1.res4


+ 3 - 0
Subject 17/sub-17_task-arrow_run-2.ds/BadChannels

@@ -0,0 +1,3 @@
+MRF14
+MRT31
+MRT41

+ 26 - 0
Subject 17/sub-17_task-arrow_run-2.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-17_task-arrow_run-2.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

File diff suppressed because it is too large
+ 1637 - 0
Subject 17/sub-17_task-arrow_run-2.ds/MarkerFile.mrk


BIN
Subject 17/sub-17_task-arrow_run-2.ds/bad.segments


+ 32 - 0
Subject 17/sub-17_task-arrow_run-2.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:37
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 17/sub-17_task-arrow_run-2.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:37  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	1,4,2.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,60.00000000000000000,60.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,120.00000000000000000,120.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,180.00000000000000000,180.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,240.00000000000000000,240.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	0,0,1,1
+}

BIN
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.acq


+ 37 - 0
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 6.18948
+	y = 7.996
+	z = -23.8842
+measured left ear coil position relative to dewar (cm):
+	x = -4.75434
+	y = 5.75286
+	z = -28.32
+measured right ear coil position relative to dewar (cm):
+	x = 6.86879
+	y = -3.83463
+	z = -28.2311
+measured nasion coil position relative to head (cm):
+	x = 9.75406
+	y = 3.33067e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.380515
+	y = 7.52406
+	z = 1.06581e-14
+measured right ear coil position relative to head (cm):
+	x = -0.380515
+	y = -7.52406
+	z = -7.10543e-15
+

BIN
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.infods


+ 1 - 0
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1903200008--f806a69555ecb88068925b95f520a003

+ 17 - 0
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 17/sub-17_task-arrow_run-2.ds/sub-17_task-arrow_run-2.res4


+ 23 - 0
Subject 17/sub-17_task-arrow_run-3.ds/BadChannels

@@ -0,0 +1,23 @@
+MLF11
+MLF12
+MLT31
+MLT41
+MLT51
+MLT52
+MRF11
+MRF12
+MRF13
+MRF14
+MRT11
+MRT21
+MRT22
+MRT31
+MRT32
+MRT33
+MRT34
+MRT41
+MRT42
+MRT43
+MRT51
+MRT52
+MRT53

+ 26 - 0
Subject 17/sub-17_task-arrow_run-3.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/working/research_meg13/leighton/lizraw/raw/sub-17_task-arrow_run-3.ds
+
+
+NUMBER OF CLASSES:
+1
+
+
+CLASSGROUPID:
+3
+NAME:
+BAD
+COMMENT:
+
+COLOR:
+Red
+EDITABLE:
+Yes
+CLASSID:
+1
+NUMBER OF TRIALS:
+0
+LIST OF TRIALS:
+TRIAL NUMBER
+
+

File diff suppressed because it is too large
+ 1650 - 0
Subject 17/sub-17_task-arrow_run-3.ds/MarkerFile.mrk


BIN
Subject 17/sub-17_task-arrow_run-3.ds/bad.segments


+ 32 - 0
Subject 17/sub-17_task-arrow_run-3.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 04-Jan-2021 10:42
+
+CustomDs
+{
+	FixSensors:	False
+}
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	0,0
+}
+
+// Data selector parameters.
+DsSelector
+{
+	RejectBadTrials:	FALSE
+	ForceEvenNumTargets:	FALSE
+	MaximumOverlap:	0
+	StartTime:	-0
+	EndTime:	5
+	EventRange:	ALL
+	WholeTrial:	TRUE
+	CondSearchStart:	0
+	CondSearchEnd:	0
+	TargetTrialOffset:	0
+}

+ 33 - 0
Subject 17/sub-17_task-arrow_run-3.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 10:42  04/01/2021
+
+// PROCESSING PARAMETERS
+processing
+{
+	// balance: order, adapted
+	// (adapted=0 -> not adapted)
+	// (adapted=1 -> adapted)
+	balance:	3,0
+	// lowpass: enable, filterOrder, fc
+	lowpass:	0,4,0.00000000000000000
+	// highpass: enable, filterOrder, fc
+	highpass:	1,4,1.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,4,0.00000000000000000,0.00000000000000000
+	// bandpass: enable, filterOrder, fc1, fc2
+	bandpass:	0,4,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,60.00000000000000000,60.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,120.00000000000000000,120.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,180.00000000000000000,180.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,240.00000000000000000,240.00000000000000000
+	// offset: enable, baselineSelection, startPt, endPt
+	// (baseline=0 --> use pretrigger data)
+	// (baseline=1 --> use from startPt to endPt)
+	// (baseline=2 --> use whole trial)
+	// (baseline+=10 --> do trend removal)
+	offset:	1,0,1,1
+}

BIN
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.acq


+ 37 - 0
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.hc

@@ -0,0 +1,37 @@
+standard nasion coil position relative to dewar (cm):
+	x = 5.65685
+	y = 5.65685
+	z = -27
+standard left ear coil position relative to dewar (cm):
+	x = -5.65685
+	y = 5.65685
+	z = -27
+standard right ear coil position relative to dewar (cm):
+	x = 5.65685
+	y = -5.65685
+	z = -27
+measured nasion coil position relative to dewar (cm):
+	x = 6.35994
+	y = 7.85057
+	z = -24.2174
+measured left ear coil position relative to dewar (cm):
+	x = -4.81701
+	y = 5.7407
+	z = -28.4965
+measured right ear coil position relative to dewar (cm):
+	x = 6.81989
+	y = -3.93318
+	z = -28.6415
+measured nasion coil position relative to head (cm):
+	x = 9.79324
+	y = 3.60822e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.279652
+	y = 7.56158
+	z = 3.55271e-14
+measured right ear coil position relative to head (cm):
+	x = -0.279652
+	y = -7.56158
+	z = -3.90799e-14
+

BIN
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.infods


+ 1 - 0
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1925160008--d0c601cc122f09a72945ba2463baaa32

+ 17 - 0
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.newds

@@ -0,0 +1,17 @@
+// 
+// These parameters will appear in the new dataset.
+// 
+NewDatasetFields
+{
+	site:	
+	system:	DSQ-2010
+	institute:	
+	protocol:	parkinsons.rp
+	purpose:	
+	keywords:	parkinson, Liz
+	coefsName:	/opt/ctf/hardware/M021/M021_2205.coef
+	sensName:	/opt/ctf/hardware/M021/M021_2205.sens
+	appName:	Acq patch3-4.17-linux-20040429
+	systemType:	cmeg
+	bandwidth:	0.000000, 300.000000
+}

BIN
Subject 17/sub-17_task-arrow_run-3.ds/sub-17_task-arrow_run-3.res4