unravel.allen_institute.abca.merfish.merfish_check_genes module#

Use abca_merfish_check_genes (alias mcg) from UNRAVEL to check which of the specified genes are present in the regular and/or imputed MERFISH expression datasets from the Allen Brain Cell Atlas (ABCA).

Usage:#

abca_merfish_check_genes -g Slc32a1 Htr2a … [-v]

unravel.allen_institute.abca.merfish.merfish_check_genes.parse_args()[source]#

unravel.allen_institute.abca.merfish.merfish_check_genes.normalize_gene_names(gene_list, species)[source]#

Normalize gene names based on species conventions.

Parameters:

gene_list (List[str]) –
species (str) –

Return type:

List[str]

unravel.allen_institute.abca.merfish.merfish_check_genes.main()[source]#