metadata_column_mapping.json

{
    "wastewater": {
        "sample_name": "ID",
        "alternative_ID": "alternative_ID",
        "collection_data": "collection_date",
        "geo_loc_name": "location",
        "isolation_source": "Additional host information",
        "ww_population": "Additional location information",
        "collected_by_1": "authors",
        "collected_by_2": "originating_lab",
        "sequence_uploaded": "sequence_uploaded",
        "bam_uploaded": "bam_uploaded", 
        "wastewater": "wasterwater"
    },
    "normal": {
        "sample_name": "ID",
        "alternative_id": "alternative_ID",
        "collected_by_1": "authors",
        "collected_by_2": "originating_lab",
        "collection_date": "collection_date",
        "geo_loc_name": "location",
        "isolate": "Additional host information",
        "isolation_source": "Additional location information",
        "collection_method": "Specimen source",
        "gisaid_accession": "gisaid_accession",
        "gisaid_virus_name": "fasta_hdr",
        "host": "Host",
        "last_vaccinated_raw": "Last vaccinated"
    },
    "gisaid": {
        "FASTA filename": "fn", 
        "Virus name": "covv_virus_name", 
        "Type": "covv_type", 
        "Passage details/history": "covv_passage",
        "Collection date": "covv_collection_date", 
        "location": "covv_location", 
        "Additional location information": "covv_add_location",
        "Host": "covv_host", 
        "Additional host information": "covv_add_host_info", 
        "Specimen source": "covv_specimen", 
        "Outbreak": "covv_outbreak", 
        "Last vaccinated": "covv_last_vaccinated",
        "Treatment": "covv_treatment", 
        "Sequencing technology": "covv_seq_technology",
        "avg_depth": "covv_coverage",
        "originating_lab": "covv_orig_lab", 
        "Address": "covv_orig_lab_addr", 
        "Sample ID given by the sample provider": "covv_provider_sample_id",
        "Submitting lab": "covv_subm_lab", 
        "Submitting Lab Address": "covv_subm_lab_addr",
        "Sample ID given by the submitting laboratory": "covv_subm_sample_id", 
        "authors": "covv_authors"
    }
}