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Nathaniel Glassy 5 months ago
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commit
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35 changed files with 5368 additions and 0 deletions
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      Subject 02/sub-02_T1w.json
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+ 57 - 0
Subject 02/sub-02_T1w.json

@@ -0,0 +1,57 @@
+{
+	"Modality": "MR",
+	"MagneticFieldStrength": 1.5,
+	"ImagingFrequency": 63.8997,
+	"Manufacturer": "Philips",
+	"ManufacturersModelName": "Achieva",
+	"InstitutionName": "UCSF IMR",
+	"InstitutionalDepartmentName": "Radiology",
+	"DeviceSerialNumber": "08042",
+	"StationName": "MR4",
+	"BodyPartExamined": "BRAIN",
+	"PatientPosition": "HFS",
+	"ProcedureStepDescription": "MSI",
+	"SoftwareVersions": "2.6.3\\2.6.3.4",
+	"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": "13:40:11.530000",
+	"AcquisitionNumber": 3,
+	"PhilipsRescaleSlope": 6.30769,
+	"PhilipsRescaleIntercept": 0,
+	"PhilipsScaleSlope": 0.000206792,
+	"UsePhilipsFloatNotDisplayScaling": 0,
+	"SliceThickness": 1.5,
+	"SpacingBetweenSlices": 1.5,
+	"SAR": 0.0919834,
+	"EchoTime": 0.00369,
+	"RepetitionTime": 0.007735,
+	"FlipAngle": 8,
+	"CoilString": "SENSE-Head-6",
+	"PercentPhaseFOV": 75,
+	"PercentSampling": 100,
+	"EchoTrainLength": 192,
+	"PhaseEncodingSteps": 256,
+	"AcquisitionMatrixPE": 256,
+	"ReconMatrixPE": 256,
+	"WaterFatShift": 1.13461,
+	"EstimatedEffectiveEchoSpacing": 2.03739e-05,
+	"EstimatedTotalReadoutTime": 0.00519534,
+	"PixelBandwidth": 191,
+	"PhaseEncodingAxis": "i",
+	"ImageOrientationPatientDICOM": [
+		0.997008,
+		0,
+		0.0773003,
+		0,
+		1,
+		0	],
+	"InPlanePhaseEncodingDirectionDICOM": "ROW",
+	"ConversionSoftware": "dcm2niix",
+	"ConversionSoftwareVersion": "v1.0.20210317"
+}

+ 1 - 0
Subject 02/sub-02_T1w.nii

@@ -0,0 +1 @@
+/annex/objects/MD5-s18350432--0559f95e8f35e47289902e5d8ccf4b88

BIN
Subject 02/sub-02_task-arrow_run-01.ds/BadChannels


+ 26 - 0
Subject 02/sub-02_task-arrow_run-01.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg13/leighton/lizraw/raw/sub-02_task-arrow_run-01.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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+ 1587 - 0
Subject 02/sub-02_task-arrow_run-01.ds/MarkerFile.mrk


BIN
Subject 02/sub-02_task-arrow_run-01.ds/bad.segments


+ 32 - 0
Subject 02/sub-02_task-arrow_run-01.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 09-Jun-2021 12:05
+
+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 02/sub-02_task-arrow_run-01.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 12:05  09/06/2021
+
+// 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:	0,4,0.00000000000000000
+	// 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:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// 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
+}

+ 37 - 0
Subject 02/sub-02_task-arrow_run-01.ds/sub-02_task-arrow_run-01.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 = 7.93566
+	y = 6.95866
+	z = -25.2534
+measured left ear coil position relative to dewar (cm):
+	x = -4.85036
+	y = 5.73432
+	z = -28.2107
+measured right ear coil position relative to dewar (cm):
+	x = 5.5561
+	y = -6.08207
+	z = -28.683
+measured nasion coil position relative to head (cm):
+	x = 10.889
+	y = 2.22045e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.315872
+	y = 7.86997
+	z = 1.06581e-14
+measured right ear coil position relative to head (cm):
+	x = -0.315872
+	y = -7.86997
+	z = -3.55271e-15
+

BIN
Subject 02/sub-02_task-arrow_run-01.ds/sub-02_task-arrow_run-01.infods


+ 1 - 0
Subject 02/sub-02_task-arrow_run-01.ds/sub-02_task-arrow_run-01.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1932480008--9b5cc4dd68acab082da410f038f1b536

+ 17 - 0
Subject 02/sub-02_task-arrow_run-01.ds/sub-02_task-arrow_run-01.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 02/sub-02_task-arrow_run-01.ds/sub-02_task-arrow_run-01.res4


BIN
Subject 02/sub-02_task-arrow_run-02.ds/BadChannels


+ 26 - 0
Subject 02/sub-02_task-arrow_run-02.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg13/leighton/lizraw/raw/sub-02_task-arrow_run-02.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
+ 1625 - 0
Subject 02/sub-02_task-arrow_run-02.ds/MarkerFile.mrk


BIN
Subject 02/sub-02_task-arrow_run-02.ds/bad.segments


+ 32 - 0
Subject 02/sub-02_task-arrow_run-02.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 09-Jun-2021 12:07
+
+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 02/sub-02_task-arrow_run-02.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 12:07  09/06/2021
+
+// 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:	0,4,0.00000000000000000
+	// 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:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// 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
+}

+ 37 - 0
Subject 02/sub-02_task-arrow_run-02.ds/sub-02_task-arrow_run-02.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 = 7.92983
+	y = 6.95524
+	z = -24.9956
+measured left ear coil position relative to dewar (cm):
+	x = -4.73514
+	y = 5.79534
+	z = -28.215
+measured right ear coil position relative to dewar (cm):
+	x = 5.72208
+	y = -5.89778
+	z = -28.593
+measured nasion coil position relative to head (cm):
+	x = 10.7707
+	y = 5.55112e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.253108
+	y = 7.8417
+	z = 2.84217e-14
+measured right ear coil position relative to head (cm):
+	x = -0.253108
+	y = -7.8417
+	z = -2.84217e-14
+

BIN
Subject 02/sub-02_task-arrow_run-02.ds/sub-02_task-arrow_run-02.infods


+ 1 - 0
Subject 02/sub-02_task-arrow_run-02.ds/sub-02_task-arrow_run-02.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1947120008--c92d318b95ed543587bcae0f460918ce

+ 17 - 0
Subject 02/sub-02_task-arrow_run-02.ds/sub-02_task-arrow_run-02.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 02/sub-02_task-arrow_run-02.ds/sub-02_task-arrow_run-02.res4


BIN
Subject 02/sub-02_task-arrow_run-03.ds/BadChannels


+ 26 - 0
Subject 02/sub-02_task-arrow_run-03.ds/ClassFile.cls

@@ -0,0 +1,26 @@
+PATH OF DATASET:
+/data/research_meg13/leighton/lizraw/raw/sub-02_task-arrow_run-03.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
+ 1660 - 0
Subject 02/sub-02_task-arrow_run-03.ds/MarkerFile.mrk


BIN
Subject 02/sub-02_task-arrow_run-03.ds/bad.segments


+ 32 - 0
Subject 02/sub-02_task-arrow_run-03.ds/params.dsc

@@ -0,0 +1,32 @@
+
+// Head Localization parameters.
+// 09-Jun-2021 12:08
+
+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 02/sub-02_task-arrow_run-03.ds/processing.cfg

@@ -0,0 +1,33 @@
+// Processing configuration.
+// 12:08  09/06/2021
+
+// 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:	0,4,0.00000000000000000
+	// 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:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// bandreject: enable, filterOrder, fc1, fc2
+	bandreject:	0,2,0.00000000000000000,0.00000000000000000
+	// 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
+}

+ 37 - 0
Subject 02/sub-02_task-arrow_run-03.ds/sub-02_task-arrow_run-03.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 = 7.88441
+	y = 6.97539
+	z = -25.2468
+measured left ear coil position relative to dewar (cm):
+	x = -5.02745
+	y = 5.61008
+	z = -28.2541
+measured right ear coil position relative to dewar (cm):
+	x = 5.68112
+	y = -5.9975
+	z = -28.7401
+measured nasion coil position relative to head (cm):
+	x = 10.9123
+	y = 2.22045e-16
+	z = 0
+measured left ear coil position relative to head (cm):
+	x = 0.177076
+	y = 7.8981
+	z = -2.13163e-14
+measured right ear coil position relative to head (cm):
+	x = -0.177076
+	y = -7.8981
+	z = 2.13163e-14
+

BIN
Subject 02/sub-02_task-arrow_run-03.ds/sub-02_task-arrow_run-03.infods


+ 1 - 0
Subject 02/sub-02_task-arrow_run-03.ds/sub-02_task-arrow_run-03.meg4

@@ -0,0 +1 @@
+/annex/objects/MD5-s1954440008--24dab584e3207faf7dfa4d8ee2f0b418

+ 17 - 0
Subject 02/sub-02_task-arrow_run-03.ds/sub-02_task-arrow_run-03.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 02/sub-02_task-arrow_run-03.ds/sub-02_task-arrow_run-03.res4