NAME¶

runMetaBat.sh - Wrapper for MetaBAT

DESCRIPTION¶

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

OPTIONS¶

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

AUTHOR¶

This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.