petsurfer-km — sub-PS11_ses-baseline

Summary

Subject	sub-PS11
Session	ses-baseline
Tracer	11CPS13
Methods	MRTM1, MRTM2, Logan, MA1
Reference region(s)	Left-Cerebellum-Cortex, Right-Cerebellum-Cortex
High-binding region(s)	Left-Putamen, Right-Putamen
k2prime	0.046526238322258
t* (seconds)	540.0
Volumetric smoothing (FWHM)	6.0 mm
Surface smoothing (FWHM)	5.0 mm

Parametric Maps

MRTM1 — BPND

Volumetric (MNI152)

MRTM1 BPND MNI152

View results in freebrowse

Surface (LH, fsaverage)

MRTM1 BPND lh

Surface (RH, fsaverage)

MRTM1 BPND rh

MRTM2 — BPND

Volumetric (MNI152)

MRTM2 BPND MNI152

View results in freebrowse

Surface (LH, fsaverage)

MRTM2 BPND lh

Surface (RH, fsaverage)

MRTM2 BPND rh

Logan — VT

Volumetric (MNI152)

Logan VT MNI152

View results in freebrowse

Surface (LH, fsaverage)

Logan VT lh

Surface (RH, fsaverage)

Logan VT rh

MA1 — VT

Volumetric (MNI152)

MA1 VT MNI152

View results in freebrowse

Surface (LH, fsaverage)

MA1 VT lh

Surface (RH, fsaverage)

MA1 VT rh

ROI Results

MRTM1 — BPND

Region	R1	k2	k2a	k2-k2a
Left-Cerebral-White-Matter	0.713	0.030	0.023	0.053
Left-Lateral-Ventricle	0.388	0.015	0.017	0.031
Left-Inf-Lat-Vent	0.631	0.047	0.029	0.076
Left-Cerebellum-White-Matter	0.764	0.038	0.033	0.071
Left-Cerebellum-Cortex	0.996	0.017	0.017	0.034
Left-Thalamus	0.988	0.082	0.063	0.145
Left-Caudate	0.841	0.018	0.018	0.036
Left-Putamen	1.080	0.053	0.042	0.095
Left-Pallidum	0.789	0.062	0.046	0.108
Brain-Stem	0.696	0.053	0.045	0.098
Left-Hippocampus	0.804	0.048	0.026	0.074
Left-Amygdala	0.735	0.047	0.038	0.085
CSF	0.801	0.039	0.038	0.077
Left-Accumbens-area	0.920	0.081	0.069	0.150
Left-VentralDC	0.762	0.056	0.043	0.099
Left-choroid-plexus	0.673	0.071	0.058	0.129
Right-Cerebral-White-Matter	0.718	0.029	0.023	0.052
Right-Lateral-Ventricle	0.394	0.016	0.019	0.035
Right-Inf-Lat-Vent	0.555	0.029	0.018	0.047
Right-Cerebellum-White-Matter	0.764	0.042	0.036	0.077
Right-Cerebellum-Cortex	0.998	0.016	0.016	0.031
Right-Thalamus	0.988	0.101	0.079	0.180
Right-Caudate	0.869	0.013	0.012	0.025
Right-Putamen	1.051	0.046	0.037	0.083
Right-Pallidum	0.787	0.057	0.043	0.100
Right-Hippocampus	0.780	0.049	0.027	0.076
Right-Amygdala	0.711	0.047	0.038	0.085
Right-Accumbens-area	0.924	0.057	0.051	0.108
Right-VentralDC	0.759	0.055	0.042	0.097
Right-choroid-plexus	0.651	0.068	0.058	0.126
Skull	0.139	0.006	0.013	0.019
Vermis	0.986	0.077	0.083	0.160
Pons	0.828	0.044	0.033	0.076
ctx-lh-bankssts	0.971	0.028	0.022	0.050
ctx-lh-caudalanteriorcingulate	0.953	0.018	0.015	0.033
ctx-lh-caudalmiddlefrontal	1.031	0.013	0.012	0.024
ctx-lh-cuneus	1.146	0.048	0.031	0.078
ctx-lh-entorhinal	0.742	0.031	0.027	0.058
ctx-lh-fusiform	0.898	0.036	0.031	0.066
ctx-lh-inferiorparietal	0.946	0.053	0.045	0.098
ctx-lh-inferiortemporal	0.877	0.029	0.026	0.055
ctx-lh-isthmuscingulate	1.018	-0.003	-0.004	-0.008
ctx-lh-lateraloccipital	0.990	0.065	0.045	0.110
ctx-lh-lateralorbitofrontal	0.960	0.009	0.007	0.016
ctx-lh-lingual	1.053	0.052	0.035	0.087
ctx-lh-medialorbitofrontal	0.996	0.032	0.030	0.062
ctx-lh-middletemporal	0.920	0.044	0.041	0.085
ctx-lh-parahippocampal	0.831	0.025	0.021	0.046
ctx-lh-paracentral	1.041	-0.001	-0.002	-0.003
ctx-lh-parsopercularis	1.027	0.027	0.024	0.050
ctx-lh-parsorbitalis	0.967	0.005	0.004	0.009
ctx-lh-parstriangularis	1.013	0.037	0.032	0.069
ctx-lh-pericalcarine	1.185	0.058	0.034	0.091
ctx-lh-postcentral	1.015	0.052	0.042	0.094
ctx-lh-posteriorcingulate	1.138	-0.006	-0.006	-0.012
ctx-lh-precentral	1.009	0.032	0.027	0.059
ctx-lh-precuneus	1.056	0.000	-0.001	-0.001
ctx-lh-rostralanteriorcingulate	0.975	0.039	0.035	0.074
ctx-lh-rostralmiddlefrontal	1.040	0.021	0.018	0.039
ctx-lh-superiorfrontal	1.026	0.003	0.003	0.006
ctx-lh-superiorparietal	0.951	0.050	0.043	0.093
ctx-lh-superiortemporal	0.934	0.037	0.032	0.069
ctx-lh-supramarginal	0.992	0.041	0.036	0.077
ctx-lh-frontalpole	1.022	-0.020	-0.021	-0.040
ctx-lh-temporalpole	0.808	0.021	0.019	0.040
ctx-lh-transversetemporal	1.232	0.057	0.040	0.097
ctx-lh-insula	0.944	0.041	0.034	0.075
ctx-rh-bankssts	1.040	0.028	0.022	0.050
ctx-rh-caudalanteriorcingulate	0.978	0.031	0.028	0.059
ctx-rh-caudalmiddlefrontal	1.046	-0.003	-0.003	-0.005
ctx-rh-cuneus	1.094	0.069	0.048	0.117
ctx-rh-entorhinal	0.780	0.016	0.013	0.028
ctx-rh-fusiform	0.914	0.025	0.021	0.046
ctx-rh-inferiorparietal	1.003	0.040	0.034	0.074
ctx-rh-inferiortemporal	0.902	0.014	0.012	0.026
ctx-rh-isthmuscingulate	1.035	-0.002	-0.003	-0.004
ctx-rh-lateraloccipital	0.997	0.064	0.046	0.110
ctx-rh-lateralorbitofrontal	0.978	0.000	-0.001	-0.001
ctx-rh-lingual	1.028	0.053	0.036	0.089
ctx-rh-medialorbitofrontal	1.013	0.027	0.025	0.052
ctx-rh-middletemporal	0.917	0.030	0.028	0.058
ctx-rh-parahippocampal	0.820	0.025	0.020	0.045
ctx-rh-paracentral	1.033	0.014	0.011	0.025
ctx-rh-parsopercularis	1.032	-0.018	-0.017	-0.035
ctx-rh-parsorbitalis	1.018	-0.014	-0.015	-0.029
ctx-rh-parstriangularis	1.043	0.008	0.007	0.015
ctx-rh-pericalcarine	1.179	0.071	0.041	0.113
ctx-rh-postcentral	1.008	0.048	0.040	0.087
ctx-rh-posteriorcingulate	1.106	-0.010	-0.010	-0.020
ctx-rh-precentral	1.006	0.018	0.015	0.033
ctx-rh-precuneus	1.050	-0.003	-0.004	-0.007
ctx-rh-rostralanteriorcingulate	0.986	0.049	0.044	0.094
ctx-rh-rostralmiddlefrontal	1.070	-0.007	-0.007	-0.014
ctx-rh-superiorfrontal	1.021	-0.001	-0.001	-0.003
ctx-rh-superiorparietal	0.932	0.051	0.045	0.096
ctx-rh-superiortemporal	0.921	0.028	0.026	0.054
ctx-rh-supramarginal	0.983	0.031	0.028	0.058
ctx-rh-frontalpole	1.036	-0.015	-0.016	-0.031
ctx-rh-temporalpole	0.745	0.017	0.014	0.031
ctx-rh-transversetemporal	1.269	0.064	0.045	0.108
ctx-rh-insula	0.969	0.038	0.032	0.069

MRTM2 — BPND

Region	k2	k2a	k2-k2a
Left-Cerebral-White-Matter	0.033	0.026	0.007
Left-Lateral-Ventricle	0.018	0.021	-0.004
Left-Inf-Lat-Vent	0.032	0.017	0.014
Left-Cerebellum-White-Matter	0.036	0.030	0.005
Left-Cerebellum-Cortex	0.046	0.046	0.000
Left-Thalamus	0.048	0.036	0.012
Left-Caudate	0.038	0.039	-0.001
Left-Putamen	0.050	0.040	0.010
Left-Pallidum	0.039	0.028	0.011
Brain-Stem	0.034	0.028	0.006
Left-Hippocampus	0.039	0.020	0.019
Left-Amygdala	0.035	0.027	0.008
CSF	0.037	0.037	0.001
Left-Accumbens-area	0.044	0.037	0.007
Left-VentralDC	0.037	0.027	0.010
Left-choroid-plexus	0.035	0.027	0.008
Right-Cerebral-White-Matter	0.033	0.026	0.007
Right-Lateral-Ventricle	0.018	0.022	-0.004
Right-Inf-Lat-Vent	0.026	0.016	0.011
Right-Cerebellum-White-Matter	0.036	0.030	0.006
Right-Cerebellum-Cortex	0.047	0.047	-0.000
Right-Thalamus	0.048	0.037	0.011
Right-Caudate	0.040	0.041	-0.001
Right-Putamen	0.049	0.039	0.009
Right-Pallidum	0.038	0.028	0.010
Right-Hippocampus	0.038	0.020	0.018
Right-Amygdala	0.034	0.027	0.007
Right-Accumbens-area	0.043	0.038	0.005
Right-VentralDC	0.037	0.027	0.010
Right-choroid-plexus	0.034	0.027	0.007
Skull	0.006	0.015	-0.008
Vermis	0.046	0.049	-0.004
Pons	0.039	0.029	0.010
ctx-lh-bankssts	0.044	0.037	0.008
ctx-lh-caudalanteriorcingulate	0.043	0.039	0.004
ctx-lh-caudalmiddlefrontal	0.048	0.045	0.003
ctx-lh-cuneus	0.053	0.035	0.018
ctx-lh-entorhinal	0.034	0.031	0.003
ctx-lh-fusiform	0.042	0.036	0.005
ctx-lh-inferiorparietal	0.044	0.038	0.007
ctx-lh-inferiortemporal	0.040	0.037	0.003
ctx-lh-isthmuscingulate	0.046	0.043	0.004
ctx-lh-lateraloccipital	0.047	0.032	0.015
ctx-lh-lateralorbitofrontal	0.044	0.039	0.004
ctx-lh-lingual	0.049	0.032	0.017
ctx-lh-medialorbitofrontal	0.046	0.043	0.004
ctx-lh-middletemporal	0.043	0.039	0.003
ctx-lh-parahippocampal	0.038	0.033	0.005
ctx-lh-paracentral	0.047	0.040	0.007
ctx-lh-parsopercularis	0.047	0.042	0.005
ctx-lh-parsorbitalis	0.044	0.041	0.003
ctx-lh-parstriangularis	0.047	0.041	0.006
ctx-lh-pericalcarine	0.055	0.032	0.023
ctx-lh-postcentral	0.047	0.038	0.010
ctx-lh-posteriorcingulate	0.053	0.045	0.007
ctx-lh-precentral	0.046	0.039	0.007
ctx-lh-precuneus	0.048	0.042	0.006
ctx-lh-rostralanteriorcingulate	0.045	0.041	0.005
ctx-lh-rostralmiddlefrontal	0.048	0.043	0.005
ctx-lh-superiorfrontal	0.047	0.045	0.002
ctx-lh-superiorparietal	0.044	0.038	0.007
ctx-lh-superiortemporal	0.043	0.038	0.005
ctx-lh-supramarginal	0.046	0.040	0.006
ctx-lh-frontalpole	0.048	0.050	-0.002
ctx-lh-temporalpole	0.037	0.034	0.002
ctx-lh-transversetemporal	0.057	0.040	0.018
ctx-lh-insula	0.044	0.037	0.007
ctx-rh-bankssts	0.048	0.040	0.008
ctx-rh-caudalanteriorcingulate	0.045	0.041	0.004
ctx-rh-caudalmiddlefrontal	0.048	0.046	0.003
ctx-rh-cuneus	0.052	0.035	0.016
ctx-rh-entorhinal	0.035	0.032	0.003
ctx-rh-fusiform	0.042	0.036	0.006
ctx-rh-inferiorparietal	0.046	0.040	0.007
ctx-rh-inferiortemporal	0.041	0.039	0.002
ctx-rh-isthmuscingulate	0.047	0.042	0.005
ctx-rh-lateraloccipital	0.047	0.033	0.014
ctx-rh-lateralorbitofrontal	0.044	0.040	0.004
ctx-rh-lingual	0.048	0.032	0.016
ctx-rh-medialorbitofrontal	0.047	0.043	0.003
ctx-rh-middletemporal	0.042	0.041	0.002
ctx-rh-parahippocampal	0.037	0.032	0.005
ctx-rh-paracentral	0.047	0.040	0.007
ctx-rh-parsopercularis	0.048	0.045	0.002
ctx-rh-parsorbitalis	0.046	0.044	0.003
ctx-rh-parstriangularis	0.048	0.043	0.005
ctx-rh-pericalcarine	0.056	0.032	0.024
ctx-rh-postcentral	0.047	0.039	0.008
ctx-rh-posteriorcingulate	0.051	0.045	0.006
ctx-rh-precentral	0.046	0.041	0.005
ctx-rh-precuneus	0.048	0.042	0.006
ctx-rh-rostralanteriorcingulate	0.046	0.042	0.004
ctx-rh-rostralmiddlefrontal	0.049	0.044	0.005
ctx-rh-superiorfrontal	0.047	0.046	0.002
ctx-rh-superiorparietal	0.044	0.038	0.006
ctx-rh-superiortemporal	0.042	0.040	0.002
ctx-rh-supramarginal	0.045	0.042	0.004
ctx-rh-frontalpole	0.049	0.053	-0.004
ctx-rh-temporalpole	0.034	0.032	0.002
ctx-rh-transversetemporal	0.059	0.042	0.018
ctx-rh-insula	0.045	0.038	0.007

Logan — VT

Region	VT
Left-Cerebral-White-Matter	1.93233
Left-Lateral-Ventricle	1.21699
Left-Inf-Lat-Vent	2.55218
Left-Cerebellum-White-Matter	1.80754
Left-Cerebellum-Cortex	1.59268
Left-Thalamus	2.07134
Left-Caudate	1.54627
Left-Putamen	1.98901
Left-Pallidum	2.11505
Brain-Stem	1.85990
Left-Hippocampus	2.81354
Left-Amygdala	1.94344
CSF	1.59632
Left-Accumbens-area	1.85417
Left-VentralDC	2.07321
Left-choroid-plexus	1.95835
Right-Cerebral-White-Matter	1.90738
Right-Lateral-Ventricle	1.19993
Right-Inf-Lat-Vent	2.25468
Right-Cerebellum-White-Matter	1.82256
Right-Cerebellum-Cortex	1.58478
Right-Thalamus	2.03329
Right-Caudate	1.52764
Right-Putamen	1.95473
Right-Pallidum	2.05732
Right-Hippocampus	2.74500
Right-Amygdala	1.89600
Right-Accumbens-area	1.77743
Right-VentralDC	2.05226
Right-choroid-plexus	1.86238
Skull	0.59956
Vermis	1.48515
Pons	2.06655
ctx-lh-bankssts	1.91123
ctx-lh-caudalanteriorcingulate	1.76628
ctx-lh-caudalmiddlefrontal	1.70216
ctx-lh-cuneus	2.38386
ctx-lh-entorhinal	1.70168
ctx-lh-fusiform	1.78795
ctx-lh-inferiorparietal	1.85328
ctx-lh-inferiortemporal	1.69197
ctx-lh-isthmuscingulate	1.74230
ctx-lh-lateraloccipital	2.27411
ctx-lh-lateralorbitofrontal	1.74886
ctx-lh-lingual	2.34107
ctx-lh-medialorbitofrontal	1.72029
ctx-lh-middletemporal	1.70854
ctx-lh-parahippocampal	1.79100
ctx-lh-paracentral	1.86782
ctx-lh-parsopercularis	1.77646
ctx-lh-parsorbitalis	1.71881
ctx-lh-parstriangularis	1.80313
ctx-lh-pericalcarine	2.66524
ctx-lh-postcentral	1.96958
ctx-lh-posteriorcingulate	1.85123
ctx-lh-precentral	1.86867
ctx-lh-precuneus	1.81820
ctx-lh-rostralanteriorcingulate	1.76142
ctx-lh-rostralmiddlefrontal	1.78773
ctx-lh-superiorfrontal	1.67818
ctx-lh-superiorparietal	1.85152
ctx-lh-superiortemporal	1.78070
ctx-lh-supramarginal	1.81074
ctx-lh-frontalpole	1.54162
ctx-lh-temporalpole	1.67013
ctx-lh-transversetemporal	2.27275
ctx-lh-insula	1.87706
ctx-rh-bankssts	1.89970
ctx-rh-caudalanteriorcingulate	1.74949
ctx-rh-caudalmiddlefrontal	1.69078
ctx-rh-cuneus	2.28560
ctx-rh-entorhinal	1.70105
ctx-rh-fusiform	1.82901
ctx-rh-inferiorparietal	1.84021
ctx-rh-inferiortemporal	1.66138
ctx-rh-isthmuscingulate	1.79654
ctx-rh-lateraloccipital	2.22773
ctx-rh-lateralorbitofrontal	1.74827
ctx-rh-lingual	2.29646
ctx-rh-medialorbitofrontal	1.71444
ctx-rh-middletemporal	1.64539
ctx-rh-parahippocampal	1.80239
ctx-rh-paracentral	1.87079
ctx-rh-parsopercularis	1.67390
ctx-rh-parsorbitalis	1.69936
ctx-rh-parstriangularis	1.77956
ctx-rh-pericalcarine	2.72049
ctx-rh-postcentral	1.89119
ctx-rh-posteriorcingulate	1.80138
ctx-rh-precentral	1.77967
ctx-rh-precuneus	1.81733
ctx-rh-rostralanteriorcingulate	1.74566
ctx-rh-rostralmiddlefrontal	1.77029
ctx-rh-superiorfrontal	1.65300
ctx-rh-superiorparietal	1.81064
ctx-rh-superiortemporal	1.66537
ctx-rh-supramarginal	1.72830
ctx-rh-frontalpole	1.49693
ctx-rh-temporalpole	1.62312
ctx-rh-transversetemporal	2.25047
ctx-rh-insula	1.86409

MA1 — VT

Region	VT
Left-Cerebral-White-Matter	1.98927
Left-Lateral-Ventricle	1.28426
Left-Inf-Lat-Vent	2.61108
Left-Cerebellum-White-Matter	1.84284
Left-Cerebellum-Cortex	1.61428
Left-Thalamus	2.09652
Left-Caudate	1.58350
Left-Putamen	2.01938
Left-Pallidum	2.14549
Brain-Stem	1.88548
Left-Hippocampus	2.89321
Left-Amygdala	1.97979
CSF	1.61988
Left-Accumbens-area	1.87777
Left-VentralDC	2.10423
Left-choroid-plexus	1.98574
Right-Cerebral-White-Matter	1.96342
Right-Lateral-Ventricle	1.25621
Right-Inf-Lat-Vent	2.40326
Right-Cerebellum-White-Matter	1.85488
Right-Cerebellum-Cortex	1.60479
Right-Thalamus	2.05526
Right-Caudate	1.55924
Right-Putamen	1.98592
Right-Pallidum	2.09387
Right-Hippocampus	2.82231
Right-Amygdala	1.93241
Right-Accumbens-area	1.80197
Right-VentralDC	2.08309
Right-choroid-plexus	1.88856
Skull	0.64054
Vermis	1.50614
Pons	2.10156
ctx-lh-bankssts	1.95013
ctx-lh-caudalanteriorcingulate	1.80748
ctx-lh-caudalmiddlefrontal	1.73020
ctx-lh-cuneus	2.42550
ctx-lh-entorhinal	1.74043
ctx-lh-fusiform	1.82154
ctx-lh-inferiorparietal	1.88170
ctx-lh-inferiortemporal	1.72456
ctx-lh-isthmuscingulate	1.78052
ctx-lh-lateraloccipital	2.30629
ctx-lh-lateralorbitofrontal	1.78752
ctx-lh-lingual	2.38115
ctx-lh-medialorbitofrontal	1.74551
ctx-lh-middletemporal	1.73518
ctx-lh-parahippocampal	1.84180
ctx-lh-paracentral	1.91390
ctx-lh-parsopercularis	1.80571
ctx-lh-parsorbitalis	1.75220
ctx-lh-parstriangularis	1.83206
ctx-lh-pericalcarine	2.71109
ctx-lh-postcentral	1.99588
ctx-lh-posteriorcingulate	1.88310
ctx-lh-precentral	1.89982
ctx-lh-precuneus	1.85357
ctx-lh-rostralanteriorcingulate	1.78917
ctx-lh-rostralmiddlefrontal	1.81686
ctx-lh-superiorfrontal	1.70469
ctx-lh-superiorparietal	1.87670
ctx-lh-superiortemporal	1.81176
ctx-lh-supramarginal	1.83852
ctx-lh-frontalpole	1.60326
ctx-lh-temporalpole	1.70477
ctx-lh-transversetemporal	2.30200
ctx-lh-insula	1.91085
ctx-rh-bankssts	1.93603
ctx-rh-caudalanteriorcingulate	1.77623
ctx-rh-caudalmiddlefrontal	1.71721
ctx-rh-cuneus	2.31628
ctx-rh-entorhinal	1.75626
ctx-rh-fusiform	1.87350
ctx-rh-inferiorparietal	1.86800
ctx-rh-inferiortemporal	1.69817
ctx-rh-isthmuscingulate	1.83648
ctx-rh-lateraloccipital	2.25887
ctx-rh-lateralorbitofrontal	1.79048
ctx-rh-lingual	2.33431
ctx-rh-medialorbitofrontal	1.74027
ctx-rh-middletemporal	1.67271
ctx-rh-parahippocampal	1.85732
ctx-rh-paracentral	1.90899
ctx-rh-parsopercularis	1.70724
ctx-rh-parsorbitalis	1.73868
ctx-rh-parstriangularis	1.81016
ctx-rh-pericalcarine	2.75994
ctx-rh-postcentral	1.91687
ctx-rh-posteriorcingulate	1.83175
ctx-rh-precentral	1.81037
ctx-rh-precuneus	1.85621
ctx-rh-rostralanteriorcingulate	1.77141
ctx-rh-rostralmiddlefrontal	1.80089
ctx-rh-superiorfrontal	1.67841
ctx-rh-superiorparietal	1.83474
ctx-rh-superiortemporal	1.69312
ctx-rh-supramarginal	1.75380
ctx-rh-frontalpole	1.57973
ctx-rh-temporalpole	1.67122
ctx-rh-transversetemporal	2.27757
ctx-rh-insula	1.89645

About

petsurfer-km version 0.1.2

Invocation Command /opt/petsurfer-bids/bin/petsurfer-km /data/input/ds004230 /data/output participant --km-method mrtm1 mrtm2 logan logan-ma1 --tstar 540 -w /data/work --nocleanup --log-level info

Commands Executed

Extract frame times from TAC file
tsv2petsurfer --tsv /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_desc-preproc_seg-gtm_tacs.tsv --frametime --o /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat
Extract ROI TACs
tsv2petsurfer --tsv /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_desc-preproc_seg-gtm_tacs.tsv --all --o /data/work/sub-PS11_ses-baseline/roi-tacs-petsurfer.dat
Compute mean PET volume
mri_concat /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_space-MNI152NLin2009cAsym_desc-preproc_pet.nii.gz --mean --o /data/work/sub-PS11_ses-baseline/mni152.mean.nii.gz
Create brain mask
mri_binarize --i /data/work/sub-PS11_ses-baseline/mni152.mean.nii.gz --min 1e-9 --o /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz
Smooth MNI volume (FWHM=6.0mm)
mri_fwhm --fwhm 6.0 --i /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_space-MNI152NLin2009cAsym_desc-preproc_pet.nii.gz --o /data/work/sub-PS11_ses-baseline/mni152.sm06.nii.gz --mask /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz --smooth-only
Smooth lh surface (FWHM=5.0mm)
mris_fwhm --s fsaverage --hemi lh --fwhm 5.0 --cortex --i /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_hemi-L_space-fsaverage_pet.func.gii --o /data/work/sub-PS11_ses-baseline/fsaverage.lh.sm05.nii.gz --smooth-only
Smooth rh surface (FWHM=5.0mm)
mris_fwhm --s fsaverage --hemi rh --fwhm 5.0 --cortex --i /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_hemi-R_space-fsaverage_pet.func.gii --o /data/work/sub-PS11_ses-baseline/fsaverage.rh.sm05.nii.gz --smooth-only
Extract reference region TAC
tsv2petsurfer --tsv /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_desc-preproc_seg-gtm_tacs.tsv --roiavg Left-Cerebellum-Cortex Right-Cerebellum-Cortex --o /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat
Extract high-binding region TAC
tsv2petsurfer --tsv /data/input/ds004230/derivatives/petprep/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_desc-preproc_seg-gtm_tacs.tsv --roiavg Left-Putamen Right-Putamen --hb --o /data/work/sub-PS11_ses-baseline/hb-tac-petsurfer.dat
Compute k2prime for MRTM2
mri_glmfit --table /data/work/sub-PS11_ses-baseline/hb-tac-petsurfer.dat --mrtm1 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat --o /data/work/sub-PS11_ses-baseline/mrtm1.hb --nii.gz
MRTM1 ROI-level fitting
mri_glmfit --table /data/work/sub-PS11_ses-baseline/roi-tacs-petsurfer.dat --mrtm1 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat --o /data/work/sub-PS11_ses-baseline/mrtm1.roi --nii.gz
MRTM1 MNI volume fitting (FWHM=6.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/mni152.sm06.nii.gz --mrtm1 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat --mask /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz --o /data/work/sub-PS11_ses-baseline/mrtm1.mni.sm06 --nii.gz
MRTM1 lh surface fitting (FWHM=5.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.lh.sm05.nii.gz --surf fsaverage lh --mrtm1 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat --cortex --o /data/work/sub-PS11_ses-baseline/mrtm1.fsaverage.lh.sm05 --nii.gz
MRTM1 rh surface fitting (FWHM=5.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.rh.sm05.nii.gz --surf fsaverage rh --mrtm1 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat --cortex --o /data/work/sub-PS11_ses-baseline/mrtm1.fsaverage.rh.sm05 --nii.gz
MRTM2 ROI-level fitting
mri_glmfit --table /data/work/sub-PS11_ses-baseline/roi-tacs-petsurfer.dat --mrtm2 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 0.046526238322258 --o /data/work/sub-PS11_ses-baseline/mrtm2.roi --nii.gz
MRTM2 MNI volume fitting (FWHM=6.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/mni152.sm06.nii.gz --mrtm2 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 0.046526238322258 --mask /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz --o /data/work/sub-PS11_ses-baseline/mrtm2.mni.sm06 --nii.gz
MRTM2 lh surface fitting (FWHM=5.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.lh.sm05.nii.gz --surf fsaverage lh --mrtm2 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 0.046526238322258 --cortex --o /data/work/sub-PS11_ses-baseline/mrtm2.fsaverage.lh.sm05 --nii.gz
MRTM2 rh surface fitting (FWHM=5.0mm)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.rh.sm05.nii.gz --surf fsaverage rh --mrtm2 /data/work/sub-PS11_ses-baseline/ref-tac-petsurfer.dat /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 0.046526238322258 --cortex --o /data/work/sub-PS11_ses-baseline/mrtm2.fsaverage.rh.sm05 --nii.gz
LOGAN ROI-level fitting (tstar=540.0)
mri_glmfit --table /data/work/sub-PS11_ses-baseline/roi-tacs-petsurfer.dat --logan /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan.roi --nii.gz
LOGAN MNI volume fitting (FWHM=6.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/mni152.sm06.nii.gz --logan /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --mask /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz --o /data/work/sub-PS11_ses-baseline/logan.mni.sm06 --nii.gz
LOGAN lh surface fitting (FWHM=5.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.lh.sm05.nii.gz --surf fsaverage lh --logan /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan.fsaverage.lh.sm05 --nii.gz
LOGAN rh surface fitting (FWHM=5.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.rh.sm05.nii.gz --surf fsaverage rh --logan /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan.fsaverage.rh.sm05 --nii.gz
LOGAN-MA1 ROI-level fitting (tstar=540.0)
mri_glmfit --table /data/work/sub-PS11_ses-baseline/roi-tacs-petsurfer.dat --logan-ma1 /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan-ma1.roi --nii.gz
LOGAN-MA1 MNI volume fitting (FWHM=6.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/mni152.sm06.nii.gz --logan-ma1 /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --mask /data/work/sub-PS11_ses-baseline/mni152.mask.nii.gz --o /data/work/sub-PS11_ses-baseline/logan-ma1.mni.sm06 --nii.gz
LOGAN-MA1 lh surface fitting (FWHM=5.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.lh.sm05.nii.gz --surf fsaverage lh --logan-ma1 /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan-ma1.fsaverage.lh.sm05 --nii.gz
LOGAN-MA1 rh surface fitting (FWHM=5.0mm, tstar=540.0)
mri_glmfit --y /data/work/sub-PS11_ses-baseline/fsaverage.rh.sm05.nii.gz --surf fsaverage rh --logan-ma1 /data/input/ds004230/derivatives/bloodstream/Primary_Analysis/sub-PS11/ses-baseline/pet/sub-PS11_ses-baseline_inputfunction.tsv /data/work/sub-PS11_ses-baseline/frametime-petsurfer.dat 540.0 --o /data/work/sub-PS11_ses-baseline/logan-ma1.fsaverage.rh.sm05 --nii.gz

Work Directory /data/work/sub-PS11_ses-baseline

Output Directory /data/output/sub-PS11/ses-baseline

File Mapping

Work Directory	Output Directory
`mrtm1.mni.sm06/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_space-MNI152NLin2009cAsym_desc-sm6_model-MRTM1_meas-BPND_mimap.nii.gz`
`mrtm1.fsaverage.lh.sm05/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-L_space-fsaverage_desc-sm5_model-MRTM1_meas-BPND_mimap.nii.gz`
`mrtm1.fsaverage.rh.sm05/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-R_space-fsaverage_desc-sm5_model-MRTM1_meas-BPND_mimap.nii.gz`
`mrtm1.roi/gamma.table.dat`	`pet/sub-PS11_ses-baseline_trc-11CPS13_model-MRTM1_kinpar.tsv`
`mrtm2.mni.sm06/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_space-MNI152NLin2009cAsym_desc-sm6_model-MRTM2_meas-BPND_mimap.nii.gz`
`mrtm2.fsaverage.lh.sm05/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-L_space-fsaverage_desc-sm5_model-MRTM2_meas-BPND_mimap.nii.gz`
`mrtm2.fsaverage.rh.sm05/bp.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-R_space-fsaverage_desc-sm5_model-MRTM2_meas-BPND_mimap.nii.gz`
`mrtm2.roi/gamma.table.dat`	`pet/sub-PS11_ses-baseline_trc-11CPS13_model-MRTM2_kinpar.tsv`
`logan.mni.sm06/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_space-MNI152NLin2009cAsym_desc-sm6_model-Logan_meas-VT_mimap.nii.gz`
`logan.fsaverage.lh.sm05/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-L_space-fsaverage_desc-sm5_model-Logan_meas-VT_mimap.nii.gz`
`logan.fsaverage.rh.sm05/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-R_space-fsaverage_desc-sm5_model-Logan_meas-VT_mimap.nii.gz`
`logan.roi/vt.dat`	`pet/sub-PS11_ses-baseline_trc-11CPS13_model-Logan_kinpar.tsv`
`logan-ma1.mni.sm06/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_space-MNI152NLin2009cAsym_desc-sm6_model-MA1_meas-VT_mimap.nii.gz`
`logan-ma1.fsaverage.lh.sm05/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-L_space-fsaverage_desc-sm5_model-MA1_meas-VT_mimap.nii.gz`
`logan-ma1.fsaverage.rh.sm05/vt.nii.gz`	`pet/sub-PS11_ses-baseline_trc-11CPS13_hemi-R_space-fsaverage_desc-sm5_model-MA1_meas-VT_mimap.nii.gz`
`logan-ma1.roi/vt.dat`	`pet/sub-PS11_ses-baseline_trc-11CPS13_model-MA1_kinpar.tsv`