README.md

platform_paper_sources

Repository for customized data mining codes of the full-spectrum paper.

As this work is synergetically conducted by various collaborators, the codes are a assembly of the scripts of the main authors. In short:

• The folder yufeng contains Python codes contributed by Yufeng Liu, including codes for the data generation and analysis of microenvironment (Fig.3), axonal primary tract motif (Fig.6), cross-scale features (Fig.8) sections. In addition, it also contains codes for the data generation of modularization (Fig.2), and the initial version of arbors (Fig.5);
• The folder shengdian contains customized Python codes for the analysis of fullMorpho (Fig.4) and bouton (Fig.7), contributed by Shengdian Jiang;
• The folder yingxin is contributed by Yingxin Li, containing codes for Data summary (Fig. 1) and modularization (Fig. 2)
• The folder sujun contains the codes for arbor analysis (Fig. 5).

Usage

Simply download the codes and run them in their respective environments, such as Python or R. For detailed instructions on each section, please refer to the individual sections.

The analyses rely on various morphometry datasets including whole brain images (~3.7 Petabytes, the data sources: https://docs.google.com/spreadsheets/d/1B5HLt96GdvbgXrY8OSAxXSLVoFyo9kw9/edit#gid=675915234), multiple morphometry datasets (https://drive.google.com/drive/folders/1NwwTe840_0KQhv-zVLhw58LU9nntkb-F)

Dependence

The repository depends on a public available repository pylib: https://github.com/SEU-ALLEN-codebase/pylib