Welcome to the MouseFlow user documentation!
Note
New release available: 0.1.0dev.
MouseFlow pipeline is developed by the Sherbrooke Connectivity Imaging Lab (SCIL) and the Neurofunctional Imaging Group (GIN-IMN) in order to process diffusion MRI dataset from the raw data to the tractography. The pipeline is based on Nextflow and Singularity. The goal with this pipeline is to be fast and reproducible.
Use MouseFlow in published works should be accompanied by the following citation:
COMING SOON
Other citations can be added if MouseFlow is used in a publication. Please see How to cite MouseFlow
For Linux users, please see this section singularity-mouseflow or ref:docker-mouseflow for setup.
For MacOS users, please see this section docker-mouseflow for setup.
For any issues or difficulties with MouseFlow, please use our Neurostar tag: https://neurostars.org/tag/mouseflow
Tip
If you want to analyse datasets with white-matter lesions use profile ABS.
Install