Cortical propagation as a biomarker for recovery after stroke

Each .zip file refers to a different mouse group. Groups are defined accordingly to the paper. A .zip file contains a .mat file (matlab) associated to each mouse and each day of recording. The .mat files are "structure arrays" containing the following fields:
- force: vector (time x 1), force applied by the mouse to the handle;
- status: vector (time x 1), discrete codification of the current phase of the passive extension and active retraction cycle, see Table S1 in the Supporting Information of the paper;
- index: vector (pixels x 1), position of pixels in the 200x200 matrix of the recorded calcium;
- calcium: matrix (time x pixels), calcium fluorescence;
- day: number, relative day from lesion.

The 3-dimensional matrix of the 2-D calcium imaging over time can be calculated as (in matlab)
dataMatrix=zeros(size(dataMouse.calcium,1),200,200);
dataMatrix(:,dataMouse.index)=dataMouse.calcium;

Resolution of images in the mat file is 60 um/pixel.
Bregma is located at image coordinates 100, 75.
Stroke coordinates : 0.5 mm AP 1.75 mm ML from bregma
: image coordinates 129 (100+1750/60), 67(75-500/60)

每个.zip压缩文件对应一组不同的实验小鼠，分组规则详见对应研究论文。每个压缩包内包含对应每只小鼠及每一段记录天数的MATLAB格式.mat文件。该.mat文件为结构数组，包含以下字段：
- force（力）：(时间×1)维向量，记录小鼠施加于操作手柄的作用力；
- status（状态）：(时间×1)维向量，对被动伸展与主动回缩循环的当前阶段进行离散编码，具体编码规则详见论文补充材料中的表S1；
- index（索引）：(像素数×1)维向量，记录钙成像（calcium imaging）200×200像素矩阵中有效像素的位置信息；
- calcium（钙荧光信号）：(时间×像素数)维矩阵，存储钙荧光信号数据；
- day（相对天数）：数值型变量，表示相对于造模损伤的相对天数。

可通过以下MATLAB代码将二维钙成像（calcium imaging）的时序三维矩阵重构得到：
dataMatrix=zeros(size(dataMouse.calcium,1),200,200);
dataMatrix(:,dataMouse.index)=dataMouse.calcium;

.mat文件中图像的空间分辨率为60 μm/像素。
前囟点（Bregma）的图像坐标为(100, 75)。
病灶坐标：相对于前囟点的前后轴（anteroposterior, AP）为0.5 mm、内侧轴（mediolateral, ML）为1.75 mm；对应的图像坐标为(129, 67)，其中129=100+1750/60，67=75-500/60。