Skip to content

Commit 1979369

Browse files
chrisgorgochrisgorgo
authored
Merge pull request #51 from guiomar/enh/add_more_meg_examples
more meg examples
2 parents 113704a + 3ec4188 commit 1979369

241 files changed

Lines changed: 8391 additions & 1189 deletions

File tree

Some content is hidden

Large Commits have some content hidden by default. Use the searchbox below for content that may be hidden.

‎ds000246/CHANGES‎

Lines changed: 4 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -1,3 +1,5 @@
1-
1.0.0 2017-08-02
1+
Revision history for OpenfMRI dataset ds000246
22

3-
- Initial release
3+
1.0.0 2017-11-08
4+
5+
- Initial release

‎ds000246/README‎

Lines changed: 30 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -81,4 +81,33 @@ When correcting of delay #1, the process we use to detect the beginning of the t
8181
[2]: http://bugzilla.fcdonders.nl/show_bug.cgi?id=2300
8282
[3]: http://neuroimage.usc.edu/brainstorm/Tutorials/TutDigitize
8383
[4]: http://neuroimage.usc.edu/brainstorm/CoordinateSystems#Pre-auricular_points_.28LPA.2C_RPA.29
84-
[5]: http://neuroimage.usc.edu/brainstorm/Tutorials/Auditory
84+
[5]: http://neuroimage.usc.edu/brainstorm/Tutorials/Auditory
85+
86+
87+
### Comments added by Openfmri Curators ###
88+
===========================================
89+
90+
General Comments
91+
----------------
92+
93+
94+
Defacing
95+
--------
96+
Pydeface was used on all anatomical images to ensure de-identification of subjects. The code
97+
can be found at https://github.com/poldracklab/pydeface
98+
99+
Quality Control
100+
---------------
101+
MRIQC was run on the dataset. Results are located in derivatives/mriqc. Learn more about it here: https://mriqc.readthedocs.io/en/stable/
102+
103+
Where to discuss the dataset
104+
----------------------------
105+
1) www.openfmri.org/dataset/ds000246/ See the comments section at the bottom of the dataset
106+
page.
107+
2) www.neurostars.org Please tag any discussion topics with the tags openfmri and ds000246.
108+
3) Send an email to submissions@openfmri.org. Please include the accession number in
109+
your email.
110+
111+
Known Issues
112+
------------
113+

‎ds000246/dataset_description.json‎

Lines changed: 7 additions & 5 deletions
Original file line numberDiff line numberDiff line change
@@ -1,12 +1,14 @@
11
{
2-
"Name": "brainstorm_sample_auditory",
3-
"BIDSVersion": "1.0.0rc3",
4-
"License": "PD",
2+
"Name": "MEG-BIDS Brainstorm data sample",
3+
"BIDSVersion": "1.0.2",
4+
"License": "CC0",
55
"Authors": [
66
"Elizabeth Bock",
77
"Peter Donhauser",
88
"Francois Tadel",
99
"Sylvain Baillet"
1010
],
11-
"HowToAcknowledge": "If you reference this dataset in your publications, please aknowledge its authors and cite Brainstorm as indicated on the website (http://neuroimage.usc.edu/brainstorm/CiteBrainstorm)."
12-
}
11+
"HowToAcknowledge": "If you reference this dataset in your publications, please aknowledge its authors and cite Brainstorm as indicated on the website (http://neuroimage.usc.edu/brainstorm/CiteBrainstorm). Also, include the following message: ' This data was obtained from the OpenfMRI database. Its accession number is ds000246'",
12+
"Funding": ["NIH (2R01EB009048-05)"],
13+
"ReferencesAndLinks": ["https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3090754", "http://neuroimage.usc.edu/brainstorm/", "https://openfmri.org/dataset/ds000246/"]
14+
}

‎ds000246/sub-0001/anat/sub-0001_T1w.nii.gz‎

Lines changed: 1 addition & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1 @@
1+
��

‎ds000246/sub-0001/meg/sub-0001_task-AEF_run-01_channels.tsv‎

Lines changed: 341 additions & 341 deletions
Large diffs are not rendered by default.

‎ds000246/sub-0001/meg/sub-0001_task-AEF_run-01_coordsystem.json‎

Lines changed: 1 addition & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1 @@
1+
{"MEGCoordinateSystem":"ctf","MEGCoordinateUnits":"cm","MEGCoordinateSystemDescription":"The origin is exactly between LPA and RPA; the X-axis goes towards NAS; the Y-axis goes approximately towards LPA, orthogonal to X and in the plane spanned by the fiducials; the Z-axis goes approximately towards the vertex, orthogonal to X and Y","EEGCoordinateSystem":"ctf","EEGCoordinateUnits":"cm","EEGCoordinateSystemDescription":"The origin is exactly between LPA and RPA; the X-axis goes towards NAS; the Y-axis goes approximately towards LPA, orthogonal to X and in the plane spanned by the fiducials; the Z-axis goes approximately towards the vertex, orthogonal to X and Y","IntendedFor":"ds000246_R1.0.0/sub-0001/anat/sub-0001_T1w.nii.gz","AnatomicalMRICoordinateSystem":"NIfTI","AnatomicalMRICoordinateUnits":"mm","AnatomicalMRICoordinateSystemDescription":"The origin is generally the scanner origin, for example the center of the gradient coil; The x-axis increases from left to right; The y-axis increases from posterior to anterior; The z-axis increases from inferior to superior","HeadCoilCoordinates":{"coil1":[10.61095674,-0.01532629,-0.00407281],"coil2":[0.2701708,6.81335558,0.0013436],"coil3":[-0.24057827,-6.78962736,8.921E-5]},"HeadCoilCoordinateSystem":"ctf","HeadCoilCoordinateUnits":"cm","HeadCoilCoordinateSystemDescription":"The origin is exactly between LPA and RPA; the X-axis goes towards NAS; the Y-axis goes approximately towards LPA, orthogonal to X and in the plane spanned by the fiducials; the Z-axis goes approximately towards the vertex, orthogonal to X and Y","LandmarkCoordinates":{"NAS":[9.76823213,-0.11917776,-1.87417223],"LPA":[-0.29274026,6.88415084,0.70120923],"RPA":[-0.99183277,-6.70128616,0.08443862]},"LandmarkCoordinateSystem":"ctf","LandmarkCoordinateUnits":"cm","LandmarkCoordinateSystemDescription":"The origin is exactly between LPA and RPA; the X-axis goes towards NAS; the Y-axis goes approximately towards LPA, orthogonal to X and in the plane spanned by the fiducials; the Z-axis goes approximately towards the vertex, orthogonal to X and Y","DigitizedHeadPoints":"ds000246_R1.0.0/sub-0001/meg/sub-0001_headshape.pos","DigitizedHeadPointsCoordinateSystem":"ctf","DigitizedHeadPointsCoordinateUnits":"cm","DigitizedHeadPointsCoordinateSystemDescription":"The origin is exactly between LPA and RPA; the X-axis goes towards NAS; the Y-axis goes approximately towards LPA, orthogonal to X and in the plane spanned by the fiducials; the Z-axis goes approximately towards the vertex, orthogonal to X and Y"}

‎ds000246/sub-0001/meg/sub-0001_task-AEF_run-01_fid.json‎

Lines changed: 0 additions & 32 deletions
This file was deleted.

‎ds000246/sub-0001/meg/sub-0001_task-AEF_run-01_meg.ds/ChannelGroupSet.cfg‎

Lines changed: 29 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,29 @@
1+
// Channel Group Set Configuration.
2+
// 18-Dec-2013 09:50
3+
4+
GroupSet
5+
{
6+
Version: 2
7+
Name: Default
8+
STIM: black,UDIO001,UPPT001,UTRG001
9+
NA: black,SCLK01,HLC0018,HLC0028,HLC0038
10+
REF0: black,BG1,BG2,BG3,BP1,BP2,BP3,BR1,BR2,BR3
11+
REF1: black,G11,G12,G13,G22,G23,P11,P12,P13,P22,P23,Q11,Q12,Q22,Q23,R12,R13,R22
12+
MLC: Green,MLC11,MLC12,MLC13,MLC14,MLC15,MLC16,MLC17,MLC21,MLC22,MLC23,MLC24,MLC25,MLC31,MLC32,MLC41,MLC42,MLC51,MLC52,MLC53,MLC54,MLC55,MLC61,MLC62,MLC63
13+
MLF: Green,MLF11,MLF12,MLF13,MLF14,MLF21,MLF22,MLF23,MLF24,MLF25,MLF31,MLF32,MLF33,MLF34,MLF35,MLF41,MLF42,MLF43,MLF44,MLF45,MLF46,MLF51,MLF52,MLF53,MLF54,MLF55,MLF56,MLF61,MLF62,MLF63,MLF64,MLF65,MLF66,MLF67
14+
MLO: Green,MLO11,MLO12,MLO13,MLO14,MLO21,MLO22,MLO23,MLO24,MLO31,MLO32,MLO33,MLO34,MLO41,MLO42,MLO43,MLO44,MLO51,MLO52,MLO53
15+
MLP: Green,MLP11,MLP12,MLP21,MLP22,MLP23,MLP31,MLP32,MLP33,MLP34,MLP35,MLP41,MLP42,MLP43,MLP44,MLP45,MLP51,MLP52,MLP53,MLP54,MLP55,MLP56,MLP57
16+
MLT: Green,MLT11,MLT12,MLT13,MLT14,MLT15,MLT16,MLT21,MLT22,MLT23,MLT24,MLT25,MLT26,MLT27,MLT31,MLT32,MLT33,MLT34,MLT35,MLT36,MLT37,MLT41,MLT42,MLT43,MLT44,MLT45,MLT46,MLT47,MLT51,MLT52,MLT53,MLT54,MLT55,MLT56,MLT57
17+
MRC: Blue,MRC11,MRC12,MRC13,MRC14,MRC15,MRC16,MRC17,MRC21,MRC22,MRC23,MRC24,MRC25,MRC31,MRC32,MRC41,MRC42,MRC51,MRC52,MRC53,MRC54,MRC55,MRC61,MRC62,MRC63
18+
MRF: Blue,MRF11,MRF12,MRF13,MRF14,MRF21,MRF22,MRF23,MRF24,MRF25,MRF31,MRF32,MRF33,MRF34,MRF35,MRF41,MRF42,MRF43,MRF44,MRF45,MRF46,MRF51,MRF52,MRF53,MRF54,MRF55,MRF56,MRF61,MRF62,MRF63,MRF64,MRF65,MRF66,MRF67
19+
MRO: Blue,MRO11,MRO12,MRO13,MRO14,MRO21,MRO22,MRO23,MRO24,MRO31,MRO32,MRO33,MRO34,MRO41,MRO42,MRO43,MRO44,MRO51,MRO52,MRO53
20+
MRP: Blue,MRP11,MRP12,MRP21,MRP22,MRP23,MRP31,MRP32,MRP33,MRP34,MRP35,MRP41,MRP42,MRP43,MRP44,MRP45,MRP51,MRP52,MRP53,MRP54,MRP55,MRP56,MRP57
21+
MRT: Blue,MRT11,MRT12,MRT13,MRT14,MRT15,MRT16,MRT21,MRT22,MRT23,MRT24,MRT25,MRT26,MRT31,MRT32,MRT33,MRT34,MRT35,MRT36,MRT37,MRT41,MRT42,MRT43,MRT44,MRT45,MRT46,MRT47,MRT51,MRT52,MRT53,MRT54,MRT55,MRT56,MRT57
22+
MZ: Cyan,MZC01,MZC02,MZC03,MZC04,MZF01,MZF02,MZF03,MZO01,MZO02,MZO03,MZP01
23+
EEG: black,EEG001,EEG002,EEG057,EEG058,EEG059
24+
ADC-Amp: black,HADC001,HADC002,HADC003
25+
DAC: black,HDAC001,HDAC002,HDAC003
26+
ADC-Volt: black,UADC001
27+
POS: black,HLC0011,HLC0012,HLC0013,HLC0021,HLC0022,HLC0023,HLC0031,HLC0032,HLC0033,Na,Le,Re
28+
REF: black,HLC0014,HLC0015,HLC0016,HLC0017,HLC0024,HLC0025,HLC0026,HLC0027,HLC0034,HLC0035,HLC0036,HLC0037
29+
}

‎ds000246/sub-0001/meg/sub-0001_task-AEF_run-01_meg.ds/ClassFile.cls‎

Lines changed: 26 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,26 @@
1+
PATH OF DATASET:
2+
/home/meg/MEG_data/20131218/S01_AEF_20131218_01.ds
3+
4+
5+
NUMBER OF CLASSES:
6+
1
7+
8+
9+
CLASSGROUPID:
10+
3
11+
NAME:
12+
BAD
13+
COMMENT:
14+
Generic bad trial classification
15+
COLOR:
16+
Red
17+
EDITABLE:
18+
Yes
19+
CLASSID:
20+
1
21+
NUMBER OF TRIALS:
22+
0
23+
LIST OF TRIALS:
24+
TRIAL NUMBER
25+
26+

0 commit comments

Comments
 (0)