runMetaBat.sh(1)

Overview

runMetaBat.sh <select metabat options> assembly.fa sample1.bam [ sample2.bam ...]

You can specify any metabat options EXCEPT:

-i --inFile

-o --outFile

-a --abdFile

Also for depth calculations stage only, you can set the following environmental variables:

`PCTID=97`	`--` reads below this threshold will be discarded
`BADMAP=0`	`--` output the discarded reads to a sub directory
`MINDEPTH=1.0`	`--` require contigs to have this minimum depth to be output

For full metabat options: metabat2 -h

Unchanged in 3 releases since Debian 11 (Bullseye).