summary.py
usage: summary.py
Summarize Autometa results writing genome fastas and their respective
taxonomies/assembly metrics for respective metagenomes
optional arguments:
-h, --help show this help message and exit
--binning-main filepath
Path to Autometa binning main table (output from
--binning-main argument) (default: None)
--markers filepath Path to annotated markers respective to domain
(bacteria or archaea) binned (default: None)
--metagenome filepath
Path to metagenome assembly (default: None)
--ncbi dirpath Path to user NCBI databases directory (Required for
retrieving metabin taxonomies) (default: None)
--binning-column str Binning column to use for grouping metabins (default:
cluster)
--output-stats filepath
Path to write metabins stats table (default: None)
--output-taxonomy filepath
Path to write metabins taxonomies table (default:
None)
--output-metabins dirpath
Path to output directory. (Directory must not exist.
This directory will be created.) (default: None)