anvi-export-contigs
Table of Contents
Export contigs (or splits) from an anvi'o contigs database.
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Authors
Can consume
Can provide
Usage
This program exports the contig sequences from a contigs-db, outputting them as a contigs-fasta. It also has the ability to output the sequences of your splits instead.
You can run this program as follows:
anvi-export-contigs -c contigs-db \ -o path/to/contigs-fasta
To run it on only a named subset of your contigs, you can provide a list of contigs as a separate file (in the same format as a splits-txt). For example:
anvi-export-contigs -c contigs-db \ -o path/to/contigs-fasta \ --contigs-of-interest my_favorite_contigs.txt
where my_favorite_contigs.txt looks like this:
contig_0001
contig_0005
contig_0035
Splits mode
Want to look at your splits instead of your contigs? Just run with the flag splits-mode attached.
anvi-export-contigs -c contigs-db \ -o path/to/contigs-fasta \ --splits-mode
Edit this file to update this information.
Additional Resources
Are you aware of resources that may help users better understand the utility of this program? Please feel free to edit this file on GitHub. If you are not sure how to do that, find the __resources__ tag in this file to see an example.