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.

runMetaBat.sh 2.15                                  May 2020                                    RUNMETABAT.SH(1)