NAME¶

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

DESCRIPTION¶

Usage:¶

maf-convert.py --help maf-convert.py axt my-alignments.maf maf-convert.py blast my-alignments.maf maf-convert.py html my-alignments.maf maf-convert.py psl my-alignments.maf maf-convert.py sam my-alignments.maf maf-convert.py tab my-alignments.maf

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

-l LINESIZE, --linesize=LINESIZE

line length for blast and html formats (default: 60)