2.4.1 Write alignment blocks to a MAF file

The Output filter writes all blocks to a MAF file.

Synopsis:

maf.filter=                                 \
    [...],
    Output(                                 \
        file=data.filtered.maf.gz,          \
        compression=gzip,                   \
        mask=yes),                          \
    [...]

Arguments:

file={none|{path}}

A file path where to write alignment blocks, in the MAF format.

compression={none|gzip|zip|bzip2}

Compression format for output file.

mask={yes|no}

Tell if sequences should be masked (if a mask annotation is available), or if masking information should be ignored.