-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathSpec_preview
158 lines (127 loc) · 6.27 KB
/
Spec_preview
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
he Brain Imaging Data Structure (BIDS) Specification
===============
version 1.1.1 (working copy)
Available under the CC-BY 4.0 International license.
Browse example datasets:
[https://github.com/INCF/BIDS-examples](https://github.com/INCF/BIDS-examples)
Download example datasets:
[https://openneuro.org/public/datasets](https://openneuro.org/public/datasets)
1 Changelog
===============
1.1.1
- Improved the MEG landmark coordinates description.
- Replaced ManufacturersCapModelName in meg.json with CapManufacturer
and CapManufacturersModelName.
- Remove EEGSamplingFrequency and ManufacturersAmplifierModelName
from the meg.json.
- Improved the behavioural data description.
1.1.0
- Added support for MEG data (merged BEP008)
- Added SequenceName field.
- Added support for describing events with Hierarchical Event Descriptors [[8.5 Task events](#heading=h.daip42kp5ndz)].
- Added VolumeTiming and AcquisitionDuration fields [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added DwellTime field.
1.0.2
- Added support for high resolution (anatomical) T2star images [[8.3 Anatomy imaging data](#heading=h.fm6ipijipc08)].
- Added support for multiple defacing masks [[8.3 Anatomy imaging data](#heading=h.fm6ipijipc08)].
- Added optional key and metadata field for contrast enhanced structural scans [[8.3 Anatomy imaging data](#heading=h.fm6ipijipc08)].
- Added DelayTime field [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added support for multi echo BOLD data [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
1.0.1
- Added InstitutionName field [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added InstitutionAddress field [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added DeviceSerialNumber field [[8.4 Task (including resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added NumberOfVolumesDiscardedByUser and
NumberOfVolumesDiscardedByScanner field [[8.4 Task (including
resting state) imaging data](#heading=h.r8mrcau3kkcq)].
- Added TotalReadoutTime to functional images metadata list
[[8.4 Task (including resting state) imaging
data](#heading=h.r8mrcau3kkcq)].
1.0.1-rc1
- Added T1 Rho maps [[8.3 Anatomy imaging
data](#heading=h.fm6ipijipc08)].
- Added support for phenotypic information split into multiple files
[[8.11 Participant key file](#heading=h.pi5iigxxt8vy)].
- Added recommendations for multi site datasets
- Added SoftwareVersions
- Added run-<run_index> to the phase encoding
maps. Improved the description.
- Added InversionTime metadata key.
- Clarification on the source vs raw language.
- Added trial_type column to the event files.
- Added missing sub-<participant_label> in
behavioural data file names
- Added ability to store stimuli files.
- Clarified the language describing allowed subject labels.
- Added quantitative proton density maps.
1.0.0
- Added ability to specify fieldmaps acquired with multiple parameter
sets.
- Added ability to have multiple runs of the same fieldmap.
- Added FLASH anatomical images.
1.0.0-rc4
- Replaced links to neurolex with explicit DICOM Tags.
- Added sourcedata.
- Added data dictionaries.
- Be more explicit about contents of JSON files for structural
(anatomical) scans.
1.0.0-rc3
- Renamed PhaseEncodingDirection values from “x”, “y”,
“z” to “i”, “j”, “k” to avoid confusion with FSL parameters
- Renamed SliceEncodingDirection values from “x”, “y”,
“z” to “i”, “j”, “k”
1.0.0-rc2
- Removed the requirement that TSV files cannot include more than two
consecutive spaces.
- Refactor of the definitions sections (copied from the
manuscript)
- Make support for uncompressed .nii files more explicit.
- Added BIDSVersion to dataset.json
- Remove the statement that SliceEncodingDirection is
necessary for slice time correction
- Change dicom converter recommendation from dcmstack to dcm2nii and
dicm2nii following interactions with the community (see
[https://github.com/moloney/dcmstack/issues/39](https://github.com/moloney/dcmstack/issues/39) and
[https://github.com/neurolabusc/dcm2niix/issues/4](https://github.com/neurolabusc/dcm2niix/issues/4)).
- Added section on behavioral experiments with no accompanying MRI
acquisition
- Add _magnitude.nii[.gz] image for GE type
fieldmaps.
- Replaced EchoTimeDifference with
EchoTime1 and EchoTime2 (SPM toolbox
requires this input).
- Added support for single band reference image for DWI.
- Added DatasetDOI field in the dataset
description.
- Added description of more metadata fields relevant to DWI fieldmap
correction.
- PhaseEncodingDirection is now expressed in “x”, “y” etc.
instead of “PA” “RL” for DWI scans (so it’s the same as BOLD
scans)
- Added rec-<label> flag to BOLD files to
distinguish between different reconstruction algorithms (analogous
to anatomical scans).
- Added recommendation to use \_physio suffix for continuous recordings of motion parameters obtained by the scanner side reconstruction algorithms.
1.0.0-rc1
- Initial release
2 Table of contents
=======================
[1 Changelog](#heading=h.17phlwhk50et)
[2 Table of contents](#heading=h.zeylawffkwh9)
[3 Introduction](#heading=h.ehs58l1sp5l0)
> [3.1 Motivation](#heading=h.nn0wr5qmclie)
> [3.2 Definitions](#heading=h.ld293tqw9us4)
> [3.3 Compulsory, optional, and additional data and
metadata](#heading=h.yic0v7leqtf3)
> [3.4 Source vs. raw vs. derived data](#heading=h.juzchuxblakl)
> [3.5 The Inheritance Principle](#heading=h.l5zwpkcouhem)
> [3.6 Extensions](#heading=h.18rh5sozhnxy)
> [3.7 Citing BIDS](#heading=h.bw5qroscmvib)
[4 File Format specification](#heading=h.nx8ar720y0tv)
> [4.1 Imaging files](#heading=h.y0f2axq397vt)
> [4.2 Tabular files](#heading=h.r85srnfs3y24)
>> [4.2.1 Example:](#heading=h.fpjccp3z8lxv)
>> [4.2.2 Example:](#heading=h.o9t9l483hwh7)
> [4.3 Key/value files (dictionaries)](#heading=h.c75m812a750g)
>> [4.3.1 Example:](#heading=h.str6bi80689r)
[5 Participant names and other labels](#heading=h.8mzv4iyo50ug)