version.yml

microbetag:
    version: v.0.0.1

silva_database:
    description: Silva version used to map the taxonomy retrived to a NCBI Taxonomy id. microbetag exploits the 7-level version that Qiime builds out of the Silva database. Therefore, as long as Silva does not release a 7-level version of its latest release, microbetag needs to wait the Qiime group to do so.
    version: 132

new_taxdump:
    description: To keep track of the NCBI Taxonomy Ids indicating species and strains, microbetag makes use of the NCBI Taxonomy oriented file called "new_taxdump".  
    last_updated: 2022-03-26

gtdb_database:
    description: microbetag takes exploits GTDB (https://gtdb.ecogenomic.org/) to secure a set of high quality genomes that cover all the different taxonomic branches known up to now. Only the representative for their taxonomic level and those with a completeness > 95% and contamination < 5% are considered on the microbetag framework.
    version: 202

kegg_genomes_database: 
    last_updated: 2022-03-24


mgnify_cataologues: 
    - marine: 
        version: 1.0
        genomes-metadata: http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine/v1.0/genomes-all_metadata.tsv 
    - human_oral: 
        version: 1.0
        genomes-metadata: http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-oral/v1.0/genomes-all_metadata.tsv
    - human_gut: 
        version: 2.0
        genomes-metadata: http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-gut/v2.0/genomes-all_metadata.tsv
    - cow_rumen: 
        version: 1.0
        genomes-metadata: http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/cow-rumen/v1.0/genomes-all_metadata.tsv