fasta-txt

TXT

A TXT-type anvi’o artifact. This artifact is typically provided by the user for anvi’o to import into its databases, process, and/or use.

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Provided by

This is a file used by anvi-run-workflow that lists the name and path of all of the input fasta files.

In its simplest form, a fasta-txt is a TAB-delmited file with two columns for name and path. Here is an example:

name	path
SAMPLE_01	path/to/sample_01.fa
SAMPLE_02	path/to/sample_02.fa

Paths can be absolute or relative, and FASTA files can be compressed or not. That’s all up to you.

One of the primary users of the fasta-txt is the anvi’o snakemake workflows, and to make it more compatible to complex workflow needs, fasta-txt supports the following additional columns to provide more information for each FASTA file when available, such as external-gene-calls file and/or a functions-txt.

Here is an example with those additional columns:

name	path	external_gene_calls	gene_functional_annotation
SAMPLE_01	path/to/sample_01.fa	external-gene-calls_01.txt	functions-txt_01.txt
SAMPLE_02	path/to/sample_02.fa	external-gene-calls_02.txt	functions-txt_02.txt

For more information, check out the anvi’o workflow tutorial

Edit this file to update this information.