Great Ape Data - This dataset consists of single nucleus transcriptomic data from MTG of 
human, chimpanzee, gorilla, rhesus macaque, and common marmoset. Libraries were generated 
using either 10xV3 or SMARTseqV4.

This folder contains a single .RDS object for each species. (To open an .RDS object in R, use 'readRDS').
*[] brackets indicate variable file names for species (human, chimp, gorilla, rhesus, marmoset)

 - [species]_SCT_UMI_expression_matrix.RDS
	*contains normalized counts matrix of all 10x and SS nuclei. Matrices were normalized using Seurat's
		SCTransform normalization for each 10x donor and for SS across all donors.
		column names correspond to 'sample_id' in metadata.
		Metadata file can be used to parse 10x and SS matrices using the 'species_tech' field.
		
	*also contains relevant metadata for each nuclei such as:
	species: which species nuclei belongs to (human, chimp, gorilla, rhesus, marmoset)
	sample_id: unique label for each nuclei in the dataset
	donor: which donor nuclei came from
	species_tech: describes which species and technology nuclei is from. 
		For example, human_10x or human_ss. 
	neighborhood: describes which of the 5 neighborhood clusters the nuclei belongs to.
		(glia, it_types, lamp5_sncg_vip, l5et_l56np_l6ct_l6b, sst_sst_chodl_pvalb)
	confirmed_subclass: highly curated subclass annotations (consistent between species)
	confirmed_subclass_color: unique color scheme associated with corresponding subclasses 
	confirmed_cluster: highly curated cluster annotations for each species (unique to each species)
	confirmed_cluster_color: unique color scheme associated with corresponding clusters
	cross_species_cluster: mapping individual clusters in species to cross-species cluster IDs

 - [species]_raw_UMI_expression_matrix.RDS
	*contains raw counts matrix of all 10x and SS nuclei.
		column names correspond to 'sample_id' in metadata.
		Metadata file can be used to parse 10x and SS matrices using the 'species_tech' field.
		
	*also contains relevant metadata for each nuclei such as:
	species: which species nuclei belongs to (human, chimp, gorilla, rhesus, marmoset)
	sample_id: unique label for each nuclei in the dataset
	donor: which donor nuclei came from
	species_tech: describes which species and technology nuclei is from. 
		For example, human_10x or human_ss. 
	neighborhood: describes which of the 5 neighborhood clusters the nuclei belongs to.
		(glia, it_types, lamp5_sncg_vip, l5et_l56np_l6ct_l6b, sst_sst_chodl_pvalb)
	confirmed_subclass: highly curated subclass annotations (consistent between species)
	confirmed_subclass_color: unique color scheme associated with corresponding subclasses 
	confirmed_cluster: highly curated cluster annotations for each species (unique to each species)
	confirmed_cluster_color: unique color scheme associated with corresponding clusters
	cross_species_cluster: mapping individual clusters in species to cross-species cluster IDs

 - cross_species_mapping.csv
    *This is a modified version of Supplementary table 6 in Jorstad et al (PMID: 37824638)
    *contains a list of 86 cross-species clusters (57 consensus clusters shared across all primates,
    and 29 clusters shared across a subset of primates) and their associated within-species clusters