https://github.com/alleninstitute/cp_molecular_organization
Science Score: 13.0%
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Low similarity (9.1%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: AllenInstitute
- License: other
- Language: Jupyter Notebook
- Default Branch: main
- Size: 10 MB
Statistics
- Stars: 0
- Watchers: 1
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- Open Issues: 0
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Metadata Files
README.md
Molecular determinants of input-output connectivity in mouse caudoputamen
This repository contains a set of python scripts for performing analyses on anterograde, retrograde and single neuron data used in Wang et al.
Installation and dependencies
All analysis and visualization code has been written in Python3. Scripts require a number of dependencies, which are listed in the caudoputamen.yml file. Dependencies can be installed in a conda environment using:
conda env create -f caudoputamen.yml
Notes on usage
- Analysis requires CCFv3 annotation volumes not included in this repository. Annotation volumes can be downloaded using the Allen SDK, instructions here.
- Cortical flatmapping for Figs 3 and 4 is explained in depth here
- The data directory contains sample swcs for generating analyses and figures for Figure 4.
Level of support
We are not currently supporting this code, but simply releasing it to the community AS IS but are not able to provide any guarantees of support. The community is welcome to submit issues, but you should not expect an active response.
Owner
- Name: Allen Institute
- Login: AllenInstitute
- Kind: organization
- Location: Seattle, WA
- Website: https://alleninstitute.org
- Repositories: 184
- Profile: https://github.com/AllenInstitute
Please visit http://alleninstitute.github.io/ for more information.
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