pyNIBS 0.2024.8__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- pyNIBS-0.2024.8.dist-info/LICENSE +623 -0
- pyNIBS-0.2024.8.dist-info/METADATA +723 -0
- pyNIBS-0.2024.8.dist-info/RECORD +107 -0
- pyNIBS-0.2024.8.dist-info/WHEEL +5 -0
- pyNIBS-0.2024.8.dist-info/top_level.txt +1 -0
- pynibs/__init__.py +34 -0
- pynibs/coil.py +1367 -0
- pynibs/congruence/__init__.py +15 -0
- pynibs/congruence/congruence.py +1108 -0
- pynibs/congruence/ext_metrics.py +257 -0
- pynibs/congruence/stimulation_threshold.py +318 -0
- pynibs/data/configuration_exp0.yaml +59 -0
- pynibs/data/configuration_linear_MEP.yaml +61 -0
- pynibs/data/configuration_linear_RT.yaml +61 -0
- pynibs/data/configuration_sigmoid4.yaml +68 -0
- pynibs/data/network mapping configuration/configuration guide.md +238 -0
- pynibs/data/network mapping configuration/configuration_TEMPLATE.yaml +42 -0
- pynibs/data/network mapping configuration/configuration_for_testing.yaml +43 -0
- pynibs/data/network mapping configuration/configuration_modelTMS.yaml +43 -0
- pynibs/data/network mapping configuration/configuration_reg_isi_05.yaml +43 -0
- pynibs/data/network mapping configuration/output_documentation.md +185 -0
- pynibs/data/network mapping configuration/recommendations_for_accuracy_threshold.md +77 -0
- pynibs/data/neuron/models/L23_PC_cADpyr_biphasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L23_PC_cADpyr_monophasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_LBC_biphasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_LBC_monophasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_NBC_biphasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_NBC_monophasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_SBC_biphasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L4_SBC_monophasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L5_TTPC2_cADpyr_biphasic_v1.csv +1281 -0
- pynibs/data/neuron/models/L5_TTPC2_cADpyr_monophasic_v1.csv +1281 -0
- pynibs/expio/Mep.py +1518 -0
- pynibs/expio/__init__.py +8 -0
- pynibs/expio/brainsight.py +979 -0
- pynibs/expio/brainvis.py +71 -0
- pynibs/expio/cobot.py +239 -0
- pynibs/expio/exp.py +1876 -0
- pynibs/expio/fit_funs.py +287 -0
- pynibs/expio/localite.py +1987 -0
- pynibs/expio/signal_ced.py +51 -0
- pynibs/expio/visor.py +624 -0
- pynibs/freesurfer.py +502 -0
- pynibs/hdf5_io/__init__.py +10 -0
- pynibs/hdf5_io/hdf5_io.py +1857 -0
- pynibs/hdf5_io/xdmf.py +1542 -0
- pynibs/mesh/__init__.py +3 -0
- pynibs/mesh/mesh_struct.py +1394 -0
- pynibs/mesh/transformations.py +866 -0
- pynibs/mesh/utils.py +1103 -0
- pynibs/models/_TMS.py +211 -0
- pynibs/models/__init__.py +0 -0
- pynibs/muap.py +392 -0
- pynibs/neuron/__init__.py +2 -0
- pynibs/neuron/neuron_regression.py +284 -0
- pynibs/neuron/util.py +58 -0
- pynibs/optimization/__init__.py +5 -0
- pynibs/optimization/multichannel.py +278 -0
- pynibs/optimization/opt_mep.py +152 -0
- pynibs/optimization/optimization.py +1445 -0
- pynibs/optimization/workhorses.py +698 -0
- pynibs/pckg/__init__.py +0 -0
- pynibs/pckg/biosig/biosig4c++-1.9.5.src_fixed.tar.gz +0 -0
- pynibs/pckg/libeep/__init__.py +0 -0
- pynibs/pckg/libeep/pyeep.so +0 -0
- pynibs/regression/__init__.py +11 -0
- pynibs/regression/dual_node_detection.py +2375 -0
- pynibs/regression/regression.py +2984 -0
- pynibs/regression/score_types.py +0 -0
- pynibs/roi/__init__.py +2 -0
- pynibs/roi/roi.py +895 -0
- pynibs/roi/roi_structs.py +1233 -0
- pynibs/subject.py +1009 -0
- pynibs/tensor_scaling.py +144 -0
- pynibs/tests/data/InstrumentMarker20200225163611937.xml +19 -0
- pynibs/tests/data/TriggerMarkers_Coil0_20200225163443682.xml +14 -0
- pynibs/tests/data/TriggerMarkers_Coil1_20200225170337572.xml +6373 -0
- pynibs/tests/data/Xdmf.dtd +89 -0
- pynibs/tests/data/brainsight_niiImage_nifticoord.txt +145 -0
- pynibs/tests/data/brainsight_niiImage_nifticoord_largefile.txt +1434 -0
- pynibs/tests/data/brainsight_niiImage_niifticoord_mixedtargets.txt +47 -0
- pynibs/tests/data/create_subject_testsub.py +332 -0
- pynibs/tests/data/data.hdf5 +0 -0
- pynibs/tests/data/geo.hdf5 +0 -0
- pynibs/tests/test_coil.py +474 -0
- pynibs/tests/test_elements2nodes.py +100 -0
- pynibs/tests/test_hdf5_io/test_xdmf.py +61 -0
- pynibs/tests/test_mesh_transformations.py +123 -0
- pynibs/tests/test_mesh_utils.py +143 -0
- pynibs/tests/test_nnav_imports.py +101 -0
- pynibs/tests/test_quality_measures.py +117 -0
- pynibs/tests/test_regressdata.py +289 -0
- pynibs/tests/test_roi.py +17 -0
- pynibs/tests/test_rotations.py +86 -0
- pynibs/tests/test_subject.py +71 -0
- pynibs/tests/test_util.py +24 -0
- pynibs/tms_pulse.py +34 -0
- pynibs/util/__init__.py +4 -0
- pynibs/util/dosing.py +233 -0
- pynibs/util/quality_measures.py +562 -0
- pynibs/util/rotations.py +340 -0
- pynibs/util/simnibs.py +763 -0
- pynibs/util/util.py +727 -0
- pynibs/visualization/__init__.py +2 -0
- pynibs/visualization/para.py +4372 -0
- pynibs/visualization/plot_2D.py +137 -0
- pynibs/visualization/render_3D.py +347 -0
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pynibs/tests/test_rotations.py,sha256=vdxXqPeySo82Bam7n63FqA6rQcXpr0cXljn7-OVVcwA,4167
|
|
80
|
+
pynibs/tests/test_subject.py,sha256=RHY_5uM_Qd4VZ0mAW8DMWLMEPFDCBJeguvkdLtNP_vA,2973
|
|
81
|
+
pynibs/tests/test_util.py,sha256=QIbswpF2GXpGjFYYMqMG6NUVqDAP3WRBDy5AFmQ6uVg,737
|
|
82
|
+
pynibs/tests/data/InstrumentMarker20200225163611937.xml,sha256=44ZAMmWECphISXlWmjUNbXVGNhquYMQpsv_Cx8V0J4c,1226
|
|
83
|
+
pynibs/tests/data/TriggerMarkers_Coil0_20200225163443682.xml,sha256=FNxaea7kvp_DxDvO7aQR_XwQnyv5tAFaa2LepMsT1NA,964
|
|
84
|
+
pynibs/tests/data/TriggerMarkers_Coil1_20200225170337572.xml,sha256=rWvyb0zr3BBiNu2skoFX1jTcpQ47C5a1jaMViqXOWRk,341464
|
|
85
|
+
pynibs/tests/data/Xdmf.dtd,sha256=DA6s_RbRNDO19PN3jXWGAbpUiPVm0w3o70J43SwzAjU,3475
|
|
86
|
+
pynibs/tests/data/brainsight_niiImage_nifticoord.txt,sha256=lg3YsF-0yDM4HAP259fpt4zErDo0ayPtDIO2UHIDuCw,25531
|
|
87
|
+
pynibs/tests/data/brainsight_niiImage_nifticoord_largefile.txt,sha256=zHgf2MjYnGN9ZB6DjclXkbpOAK65Irv3mek6A6uIsgY,376846
|
|
88
|
+
pynibs/tests/data/brainsight_niiImage_niifticoord_mixedtargets.txt,sha256=U9Nu9zrSTBQoT06BsL2yRBFtbg-HRhxxs5c2grPw8wU,6678
|
|
89
|
+
pynibs/tests/data/create_subject_testsub.py,sha256=6g9qg8UkfOvUfzci53BjjYQurFxbCwGX5w-y-QbzKaA,18775
|
|
90
|
+
pynibs/tests/data/data.hdf5,sha256=v7-bryLXD1vC6MaeDn7RRiOBixvbqOFvQVOR-dD4sFA,129968
|
|
91
|
+
pynibs/tests/data/geo.hdf5,sha256=vJmeL5ZVHcQdyOXVmhR8gU1IblLfil9R_wFcC_HZ7sk,2625592
|
|
92
|
+
pynibs/tests/test_hdf5_io/test_xdmf.py,sha256=prkjZjkSPBGOlkcBuzHZt1NWjXNXPNjj66nhmFOROuw,2009
|
|
93
|
+
pynibs/util/__init__.py,sha256=I-64wp5bAf3wk1u8BnyFCrclCZlJeuK9V7emFTH9I6k,100
|
|
94
|
+
pynibs/util/dosing.py,sha256=KqtLJvi9Z93tUy8sH3JDSdNGQspeD5ePLtcW9ochktc,9236
|
|
95
|
+
pynibs/util/quality_measures.py,sha256=f13RU8bYog32A98V1R7jsU0seldnRQ5VGIcxlKJQr54,21686
|
|
96
|
+
pynibs/util/rotations.py,sha256=Mkre2YdCyNOoVY7dJM3iWBSzYcptjWxPQgStbLl3z8M,9133
|
|
97
|
+
pynibs/util/simnibs.py,sha256=K6kQXYHvOZYUPMUivhWtgouXkdOLeW6D9dIF8ngBSrI,31635
|
|
98
|
+
pynibs/util/util.py,sha256=XA_p1PEM3OgSXxdSQpplCexpEBO4F_aeQg0I-2LKOjo,20484
|
|
99
|
+
pynibs/visualization/__init__.py,sha256=K3uGzZBM3plKsVGkGZ0bb0-oLRfT8l5PQIqTkTwfVmE,48
|
|
100
|
+
pynibs/visualization/para.py,sha256=lnyWph3DpLtgc2ef8tovSlTTEjBFRzaWP8ycSti5NkM,185081
|
|
101
|
+
pynibs/visualization/plot_2D.py,sha256=rcCgVilMqCqJceHXMvwwo05OrxwYcuQv6lAA2TDKFn4,5139
|
|
102
|
+
pynibs/visualization/render_3D.py,sha256=YaW_-cgrH7UrSqspWekZMG3__lKbsFEF6uiF3O8dbxM,14871
|
|
103
|
+
pyNIBS-0.2024.8.dist-info/LICENSE,sha256=GkQ9UpUz_pzXqfniZT3PopCfmi1K2wSZpiIqcHnMbMA,32476
|
|
104
|
+
pyNIBS-0.2024.8.dist-info/METADATA,sha256=DZiMkI6qHoZ_h6WJF0VDN28COZAJz9kty-5j-H3jGzk,43182
|
|
105
|
+
pyNIBS-0.2024.8.dist-info/WHEEL,sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM,92
|
|
106
|
+
pyNIBS-0.2024.8.dist-info/top_level.txt,sha256=9ZHaYB8yuIaluoqNxocpuDPbJak9szUD0bESYmGZpgQ,7
|
|
107
|
+
pyNIBS-0.2024.8.dist-info/RECORD,,
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
pynibs
|
pynibs/__init__.py
ADDED
|
@@ -0,0 +1,34 @@
|
|
|
1
|
+
from .tensor_scaling import rescale_lambda_centerized_workhorse
|
|
2
|
+
from .tensor_scaling import rescale_lambda_centerized
|
|
3
|
+
from .models import *
|
|
4
|
+
from .hdf5_io import *
|
|
5
|
+
from .coil import *
|
|
6
|
+
from .expio import *
|
|
7
|
+
from .util import *
|
|
8
|
+
from .hdf5_io import *
|
|
9
|
+
from .optimization import *
|
|
10
|
+
from .freesurfer import *
|
|
11
|
+
from .roi import *
|
|
12
|
+
from .subject import *
|
|
13
|
+
from .neuron import *
|
|
14
|
+
from .mesh import *
|
|
15
|
+
from .regression import *
|
|
16
|
+
from .visualization import *
|
|
17
|
+
from .tms_pulse import *
|
|
18
|
+
|
|
19
|
+
try:
|
|
20
|
+
from .pckg import libeep
|
|
21
|
+
except (ImportError, SyntaxError):
|
|
22
|
+
pass
|
|
23
|
+
|
|
24
|
+
|
|
25
|
+
__version__ = "0.2024.8"
|
|
26
|
+
|
|
27
|
+
# when pipped, datadir is under pynibs
|
|
28
|
+
__testdatadir__ = os.path.join(os.path.dirname(__file__), '..', 'tests', 'data')
|
|
29
|
+
__datadir__ = os.path.join(os.path.dirname(__file__), '..', 'data')
|
|
30
|
+
if not os.path.exists(__testdatadir__):
|
|
31
|
+
__testdatadir__ = os.path.join(os.path.dirname(__file__), 'tests', 'data')
|
|
32
|
+
__datadir__ = os.path.join(os.path.dirname(__file__), 'data')
|
|
33
|
+
if not os.path.exists(__testdatadir__):
|
|
34
|
+
warnings.warn(f"Cannot find pynibs.__testdatadir__='{__testdatadir__}'")
|