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[ENH] Bep 005: Arterial Spin Labeling #652

Merged
merged 165 commits into from
Nov 11, 2020
Merged

[ENH] Bep 005: Arterial Spin Labeling #652

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8511555
Merge pull request #1 from bids-standard/master
patsycle Oct 19, 2020
0b2c1a6
Added Arterial Spin Labeling data paragraph title
patsycle Oct 7, 2020
2359132
added template for asl
patsycle Oct 7, 2020
c970594
added range of BEP005
patsycle Oct 7, 2020
d7703a2
added Storage rule timeseries
patsycle Oct 7, 2020
5df27c1
added rule on scaling
patsycle Oct 7, 2020
5ea2927
rule on 'multitimepoint ASL' added
patsycle Oct 7, 2020
83ab5c9
added introduction of 5 types of volumes
patsycle Oct 7, 2020
830930e
added volumes table (structure)
patsycle Oct 7, 2020
54e49cc
added volume 'control' in volumes table
patsycle Oct 7, 2020
7fdeaed
added volume 'label' in volumes table
patsycle Oct 7, 2020
191480e
added volume 'm0scan' in volumes table
patsycle Oct 7, 2020
57c35fd
added volume 'deltam' in volumes table
patsycle Oct 7, 2020
640bbbe
added volume 'cbf' in volumes table
patsycle Oct 7, 2020
82483e5
added hierarchy of volumes
patsycle Oct 7, 2020
7f18623
added information on aslcontext.tsv
patsycle Oct 7, 2020
629e0fc
added aslcontext.tsv example 1
patsycle Oct 7, 2020
ff07347
added aslcontext.tsv example 2
patsycle Oct 7, 2020
d37e098
added M0 options
patsycle Oct 7, 2020
05320b2
added labeling.png information
patsycle Oct 7, 2020
53ce2ef
added subtitle Required fields
patsycle Oct 7, 2020
e2fd6e5
added structure required fields table
patsycle Oct 7, 2020
f01ce39
changed structure aslREQ table to new structure
patsycle Oct 7, 2020
9fcbb33
added subtitle (P)CASL specific fields
patsycle Oct 7, 2020
2cded91
added structure PCASLspec table
patsycle Oct 7, 2020
a1c0752
added subtitle PASL-specific fields
patsycle Oct 7, 2020
a020b7d
added structure PASLspec table
patsycle Oct 7, 2020
86a6a39
added subtitel other recommended asl-related fields
patsycle Oct 7, 2020
f93ee99
added structure OTHERfields table
patsycle Oct 7, 2020
281b87e
added subtitle m0scan-specific fields
patsycle Oct 7, 2020
f0df34a
added structure m0scan table
patsycle Oct 7, 2020
0365c6f
added LabelingType in REQtable
patsycle Oct 7, 2020
19c60f6
added PostLabelingDelay in REQtable
patsycle Oct 7, 2020
e370032
added BackgroundSuppression in REQtable
patsycle Oct 7, 2020
a4f4912
added M0 in REQtable
patsycle Oct 7, 2020
7610e27
added LabelingDuration in PCASLspectable
patsycle Oct 7, 2020
bde6d05
added PCASLType to PCASLspec table
patsycle Oct 7, 2020
98245d6
added CASLType in PCASLspe table
patsycle Oct 7, 2020
0604b92
added LabelingPulseAverageGradient in PCASLspec table
patsycle Oct 7, 2020
6815ded
added LabelingPulseMaximumGradient in PCASLspec table
patsycle Oct 7, 2020
20b33af
added LabelingPulseAverageB1 in PCASL spec table
patsycle Oct 7, 2020
ed9fa55
added LabelingPulseDuration in PCASL spec table
patsycle Oct 7, 2020
6a19b23
added LabelingPulseInterval in PCASL spec Table
patsycle Oct 7, 2020
c105e0f
changed string to array of strings
patsycle Oct 7, 2020
312905e
added BolusCutOffFlag in PASLspec table
patsycle Oct 7, 2020
f22ef99
added PASLType in PASL spec Table
patsycle Oct 7, 2020
1e2bf41
added LabelingSlabThickness in PASLspec table
patsycle Oct 7, 2020
a44786a
added BolusCutOffTimingSequence
patsycle Oct 7, 2020
b9eb9c1
added BolusCutOffDelayTime
patsycle Oct 7, 2020
4c7487e
added BolusCutOffTechnique in PASLspec table
patsycle Oct 7, 2020
a6b580b
added VascularCrushin in OTHERaslTable
patsycle Oct 8, 2020
8c21e65
Added AcquisitionVoxelSize in OTHERaslTable
patsycle Oct 8, 2020
3e0ab31
update subtitels metadata and optional
patsycle Oct 8, 2020
1a9ee6e
added TotalAcqsuiredVolumes in OTHERaslTable
patsycle Oct 8, 2020
0fe9594
Added BackgroundSuppressionNumberPulses in OTHER aslTable
patsycle Oct 8, 2020
ffd7749
Update Data type BackgroundSuppressionNumberPulses
patsycle Oct 8, 2020
9c562b3
Added BackgroundSuppressionPulseTime in OTHERaslTable
patsycle Oct 8, 2020
4769f6d
added VascularCrushingVenc in OTHERaslTable
patsycle Oct 8, 2020
a4f5487
added LabelingOrientation in OTHERaslTable
patsycle Oct 8, 2020
e1d6099
added LabelingDistance in OTHERaslTable
patsycle Oct 8, 2020
93e513a
added LabelingLocationDescription in OTHERaslTable
patsycle Oct 8, 2020
30d15fd
Changed Data Type of LabelingOrientation
patsycle Oct 8, 2020
e43b5a2
added LookLocker in OTHERaslTable
patsycle Oct 8, 2020
a79d5e8
added LabelingEfficiency in OTHERaslTable
patsycle Oct 8, 2020
b477e10
added IntendedFor in m0ScanTable
patsycle Oct 8, 2020
ffdc167
added AcquisitionVoxelSize in m0scan table
patsycle Oct 8, 2020
26a77de
Added introduction Field dependencies
patsycle Oct 8, 2020
d05b90f
added Field Dependencies table
patsycle Oct 8, 2020
86eb055
added dependency table LEGEND
patsycle Oct 8, 2020
5369e5b
added m0scan template fmap Case 4 pepolar
patsycle Oct 8, 2020
9a940ae
added m0scan in description case 4 pepolar
patsycle Oct 8, 2020
da87890
changed requirement intended for case 4 pepolar
patsycle Oct 8, 2020
60e74dc
added introduction on asl instructions of common fields
patsycle Oct 8, 2020
61d6cdc
added MagneticFieldStrength in REQtable
patsycle Oct 8, 2020
df38256
added PulseSequenceType in REQaslTable
patsycle Oct 8, 2020
668adc7
added EchoTime in REQaslTable
patsycle Oct 8, 2020
dd72ebe
Changed EchoTime in REQaslTable
patsycle Oct 8, 2020
a56270f
added RepetitionTime in REQaslTable
patsycle Oct 8, 2020
11a4409
changed Req level and Data type of RepetitionTime REQasl Table
patsycle Oct 8, 2020
d4157a0
added VolumeTiming in REQaslTable
patsycle Oct 8, 2020
a089b8e
Added SliceTiming in REQaslTable
patsycle Oct 8, 2020
679b06d
added FlipAngle in OTHERaslTable
patsycle Oct 8, 2020
04f270d
cleanup part 1
patsycle Oct 12, 2020
28b34a1
cleanup part 2
patsycle Oct 12, 2020
1774a02
cleanup part 3
patsycle Oct 12, 2020
6ff3a9f
cleanup 4
patsycle Oct 12, 2020
7f97185
cleanup part 4
patsycle Oct 12, 2020
da7d123
cleanup part 5
patsycle Oct 12, 2020
e9bf363
Cleanup part 6
patsycle Oct 12, 2020
3277c80
cleanup examples aslcontext
patsycle Oct 12, 2020
8946c07
cleanup part 7
patsycle Oct 12, 2020
fc59f81
cleanup pepolar
patsycle Oct 12, 2020
bb9a522
cleanup part 8
patsycle Oct 12, 2020
603001f
cleanup part 10
patsycle Oct 13, 2020
4e7b34a
changed type volume_type label (table)
patsycle Oct 13, 2020
0944221
cleanup part 11
patsycle Oct 13, 2020
132dfec
cleanup part 11
patsycle Oct 13, 2020
8026c8b
cleanup part 12
patsycle Oct 13, 2020
891579a
cleanup part 12
patsycle Oct 13, 2020
edadcb4
cleanup part 12
patsycle Oct 14, 2020
acfe66d
cleanup part 13
patsycle Oct 14, 2020
3bc6618
update dependency table
patsycle Oct 15, 2020
27856f4
update BolusCutOffDelayTime
patsycle Oct 15, 2020
7939901
adapted BolusCutOffDelayTime
patsycle Oct 16, 2020
66c5de0
cleanup nr 15
patsycle Oct 19, 2020
0a812ea
update (P)(C)ASLType
patsycle Oct 20, 2020
958070d
cleanup - number and array of number consistency
patsycle Oct 20, 2020
a846b44
cleanup - 2D/3D acquisition consistency
patsycle Oct 20, 2020
bf0c325
typo
patsycle Oct 21, 2020
81dff40
removed cobidas reference
patsycle Oct 21, 2020
9fa104a
`` for m0scan PostLabelingDelay
patsycle Oct 21, 2020
fdd859e
added contributors BEP005
patsycle Oct 22, 2020
761c862
adapt template by removing png
patsycle Oct 22, 2020
7426b8a
final changes
patsycle Oct 22, 2020
5571a92
added Matthias Günther
patsycle Oct 22, 2020
f682fae
remarks TO
patsycle Oct 23, 2020
238c905
m0scan and cbf
patsycle Oct 23, 2020
c0c1d41
changes Henk Mutsaerts
patsycle Oct 23, 2020
af7d7ea
added link to recommendations paper in cbf volume
patsycle Oct 23, 2020
18137c0
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Oct 26, 2020
e8b7514
changes PASL and PCASL table
patsycle Oct 26, 2020
3cb3b29
shortening of file names
patsycle Oct 26, 2020
b0f1dac
BEP005 removed latin phrases
patsycle Oct 26, 2020
c3f1ff2
BEP005 latin phrases 2
patsycle Oct 26, 2020
75dad56
BEP005 latin phrases 3
patsycle Oct 26, 2020
9da227b
asl context examples tables corrected
patsycle Oct 26, 2020
8668c1e
fix tables issues
patsycle Oct 26, 2020
c2c86c5
fix links anat
patsycle Oct 26, 2020
27bf881
fix undone
patsycle Oct 26, 2020
d089efe
fix table
patsycle Oct 26, 2020
bc73f94
fixed ana
patsycle Oct 26, 2020
26bb71b
test
patsycle Oct 26, 2020
702ee2a
fix test
patsycle Oct 26, 2020
f666129
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Oct 26, 2020
2e22c11
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Oct 26, 2020
9f752fc
fixed dependency table
patsycle Oct 26, 2020
cf41285
deleted aslcontext example 2 and added single column
patsycle Nov 2, 2020
37e8ed1
added [_dir-<label>] for asl files
patsycle Nov 2, 2020
acaa7bb
corrections for deleting example aslcontext
patsycle Nov 2, 2020
e2ace18
clarification scaling factors
patsycle Nov 3, 2020
240c489
changed clarifciation cbf and deltam as raw data
patsycle Nov 3, 2020
05cbc45
added cases for aslcontext
patsycle Nov 4, 2020
2917920
update cases aslcontext.tsv
patsycle Nov 9, 2020
c9adb6f
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
52a5778
timeseries to time series
patsycle Nov 9, 2020
5bd0d1e
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
126cfc2
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
2660c45
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
08109f7
add postlabelingdelay full for PostLabelingDelay
patsycle Nov 9, 2020
9b115aa
removed (TE) abbreviation from EchoTime
patsycle Nov 9, 2020
83548be
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
a025205
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
81aafdd
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
f239ddb
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
7a63413
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
7651d38
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
a5c4450
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 9, 2020
427cd8f
Merge pull request #2 from patsycle/BEP-005-cases
patsycle Nov 9, 2020
f0d0b3e
format subtitels cases
patsycle Nov 9, 2020
11a252c
update LabelingEfficiency
patsycle Nov 9, 2020
b20195c
corrected typo PostLabelingDelay
patsycle Nov 9, 2020
0125bb1
Update src/04-modality-specific-files/01-magnetic-resonance-imaging-d…
patsycle Nov 10, 2020
d66edef
add back credits as attempt to solve conflict
sappelhoff Nov 10, 2020
acc061a
Merge branch 'bep-005' into BEP-005
sappelhoff Nov 10, 2020
ec536c7
#BEP-005 Return part1 by sappelhoff
HenkMutsaerts Nov 11, 2020
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