ngrams

A CONCEPT-type anvi’o artifact. This artifact is typically generated, used, and/or exported by anvi’o (and not provided by the user)..

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Provided by

anvi-analyze-synteny

Required or used by

There are no anvi’o tools that use or require this artifact directly, which means it is most likely an end-product for the user.

Description

An ngrams object is a DataFrame that contains count data of synteny patterns collected from a group of similar loci or genomes. It is produced by running anvi-analyze-synteny when given a genomes-storage-db and an annotation source.

An ngram is a group of neighboring genes that include precisely n genes, inspired by the term ngram in linguistics and natural language processing. This object was inspired by kmer count tables but is inherently different because it is counting adjacent genes and not nucleotides.

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