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Fit parameters #372

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merged 54 commits into from Sep 2, 2018
Merged

Fit parameters #372

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998705c
Added fitting procedure for sfnr and snr parameters
Feb 4, 2018
2040c90
Substantially reworked the noise estimation procedure in order to mak…
Feb 7, 2018
6361376
Improved AR estimation and calculation
Feb 14, 2018
229f7bb
Updated AR to be ARMA, involving both the generation and estimation
Feb 20, 2018
3066c7a
Add statsmodels to 'setup.py'
Feb 20, 2018
8cf4fda
Added signal change function and update notebook script
Mar 8, 2018
c1d57f7
Vectorized GRF calculation for 50x increase in speed (git add brainia…
Mar 8, 2018
98e3877
Unintentional add
Mar 8, 2018
76209c8
Did some iteration timing testing add added content
Mar 9, 2018
fda9f9e
Tweaks of notebook and defaults in fmrisim
Mar 9, 2018
4c3472c
Improved the fitting procedure, especially for AR
Mar 12, 2018
07d2425
Updated how fitting is done and how machine noise is calculated
Mar 14, 2018
8388c07
Updated how fitting is done and how machine noise is calculated
Mar 14, 2018
529b917
Updated how fitting is done and how machine noise is calculated
Mar 14, 2018
4f82e48
Updated the export epoch file to deal with error in epoch number gene…
Mar 28, 2018
0899cbd
Improved export_epoch, added more logging info, zscoring AR, reduced …
May 15, 2018
8b071f3
Fixed reference to noise dict before it wwas preset
May 16, 2018
2da8948
Increased the precision of the ar estimation and added a toggle in th…
May 24, 2018
dc9cbe9
Increased the precision of the ar estimation and added a toggle in th…
May 24, 2018
f1f0bbe
Fit AR directly
May 27, 2018
a543aac
Consolidate spatial and temporal noise fitting
May 28, 2018
2ae082e
Adjusted noise terms
May 28, 2018
9bbd190
Minor wording edits
May 28, 2018
9a83a81
Increased test coverage for fitting
May 28, 2018
20a9ac3
Added a warning
Jun 5, 2018
572244d
Merge branch 'master' into fit_parameters
CameronTEllis Jun 5, 2018
6ee9999
PEP8
Jun 5, 2018
f9676c9
PEP8
Jun 5, 2018
2a32b59
PEP8
Jun 5, 2018
be7253d
Removed plot_brain because other tools like nilearn do a much better …
Jun 6, 2018
2a1ca85
Substantial increase in coverage
Jun 6, 2018
492f522
Removed plot_brain because other tools like nilearn do a much better …
Jun 7, 2018
c15c2a4
PEP8
Jun 7, 2018
e916a3d
PEP8
Jun 7, 2018
5d1193f
Cut iterations because you can't fit easily with different noise para…
Jun 7, 2018
6dc19c9
PEP8
Jun 7, 2018
557158b
PEP8
Jun 7, 2018
559da38
Fix the error
Jun 7, 2018
fcb3d94
Fix the error
Jun 7, 2018
8646b1a
Import class
Jun 7, 2018
f0681e9
Fixed error exception
Jun 8, 2018
98b9446
Incorporated Mingbo's edits
Jun 26, 2018
6e90c17
Updated smoothing dimensions test
Jun 26, 2018
e52d0f0
Indent error
Jun 26, 2018
2cf2581
Changed the fitting procedure of _fit_spatial and _fit_temporal so th…
Jul 23, 2018
f9c7ff1
Corrected error in generating system noise. Specifically spatial nois…
Aug 10, 2018
ac1183b
Added documentation to clarify how nonbrain voxels affect SNR, how SN…
Aug 13, 2018
7b8bf11
Removed the balancing of spatial_sd based on temporal_sd
Aug 18, 2018
9e41edc
Update test_fmrisim.py
lcnature Aug 19, 2018
1f61d02
Merge branch 'master' into fit_parameters
lcnature Aug 19, 2018
d4fbd9b
Merge branch 'master' into fit_parameters
CameronTEllis Aug 31, 2018
d6e3959
adding a check that `magnitude` is indeed a list
lcnature Sep 2, 2018
657d54d
Update fmrisim.py
lcnature Sep 2, 2018
276bdfd
Update fmrisim.py
lcnature Sep 2, 2018
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