ndx-ecog NWB:N 扩展

作者：Ben Dichter

有三个数据类型，Surface、CorticalSurfaces 和 ECoGSubject。CorticalSurfaces 是一个组（类似于文件夹），用于将 Surface 对象放入其中。Surface 包含皮层区域的表面网格数据（顶点和三角形面）。ECoGSubject 是 Subject 的扩展，允许您将 CorticalSurfaces 对象添加到 /general/subject。

使用方法

python

安装

pip install ndx_ecog

编写

import pynwb
from ndx_ecog import CorticalSurfaces, ECoGSubject

nwbfile = pynwb.NWBFile(...)

...

cortical_surfaces = CorticalSurfaces()
## loop me
    cortical_surfaces.create_surface(name=name, faces=faces, vertices=veritices)
##
nwbfile.subject = ECoGSubject(cortical_surfaces=cortical_surfaces)

您可以可选地附加受试者大脑的图片

from pynwb.base import Images
from pynwb.image import GrayscaleImage

subject.images = Images(name='subject images', images=[GrayscaleImage('image1', data=image_data)])

读取

import nwbext_ecog
from pynwb import NWBHDF5IO
io = NWBHDF5IO('path_to_file.nwb','r')
nwb = io.read()
nwb.subject.cortical_surfaces

MATLAB

安装

generateExtension('/path/to/ndx-ecog/spec/ndx-ecog.namespace.yaml');

编写

cortical_surfaces = types.ecog.CorticalSurfaces;

%%% loop me
    surf = types.ecog.Surface('faces', faces, 'vertices', vertices);
    cortical_surfaces.surface.set(surface_name, surf);
%%%

file.subject = types.ecog.ECoGSubject(name, cortical_surfaces);