unravel.allen_institute.abca.merfish.merfish_regions module#
Use abca_merfish_regions or mr from UNRAVEL to list unique region names from the Allen Brain Cell Atlas MERFISH parcellation annotations.
Note
This is useful for finding region acronyms that are relevant to MERFISH data analysis.
For other MERFISH scripts,
parcellation_is prepended to the region-related columns (e.g.,parcellation_substructure).
Usage:#
abca_merfish_regions -b path/base_dir [-c column] [-o path/output.csv] [-v]
Usage with piping to grep:#
abca_merfish_regions -b path/base_dir | grep BLA