NAME

       maf-convert.py - Convert MAF-format alignments to tabular format

DESCRIPTION

   Usage:
              maf-convert.py --help maf-convert.py axt mafFile(s) maf-convert.py blast mafFile(s) maf-convert.py
              html  mafFile(s)  maf-convert.py  psl  mafFile(s) maf-convert.py sam mafFile(s) maf-convert.py tab
              mafFile(s)

       Read MAF-format alignments & write them in another format.

OPTIONS

       -h, --help
              show this help message and exit

       -p, --protein
              assume protein alignments, for psl match counts

       -d, --dictionary
              include dictionary of sequence lengths in sam format

       -f DICTFILE, --dictfile=DICTFILE
              get sequence dictionary from DICTFILE

       -r READGROUP, --readgroup=READGROUP
              read group info for sam format

       -l LINESIZE, --linesize=LINESIZE
              line length for blast and html formats (default: 60)

maf-convert.py 393                                January 2014                                 MAF-CONVERT.PY(1)