A DB-type anvi’o artifact. This artifact is typically generated, used, and/or exported by anvi’o (and not provided by the user)..
🔙 To the main page of anvi’o programs and artifacts.
Required or used by
A tRNA-seq contigs database is a contigs-db variant containing information on tRNA transcripts identified from tRNA-seq experiments.
This database is created by the program, anvi-merge-trnaseq, which is part of the trnaseq-workflow. This program also creates trnaseq-profile-dbs. anvi-run-trna-taxonomy populates the tRNA-seq contigs database with taxonomic annotations.
This database functions in a manner equivalent to the normal metagenomic-style contigs database. As normal contigs databases are associated with a normal profile-db containing coverage-related data, tRNA-seq contigs databases are associated with trnaseq-profile-dbs. The name can be misleading: tRNA-seq contigs databases do not contain information on assembled contigs as such. Rather, the fundamental type of sequence reconstructed from a tRNA-seq experiment is a tRNA seed, representing a mature tRNA sequence (minus the 3’-CCA acceptor) found in one or more samples in the experiment. tRNA seeds are not predicted by assembly at all, but by the specialized software of anvi-trnaseq and anvi-merge-trnaseq.
A variety of information on tRNA seeds is contained in a tRNA-seq contigs database, including structural profiles, taxonomic annotations, and user-defined bins.
Edit this file to update this information.