COMPARE_GENOMES.PY

NAME

compare_genomes.py - find methylation in nanopore reads

DESCRIPTION

usage: compare_genomes.py [-h] --bed1 BED1 --bed2 BED2 [-g GENOME_ALIGNMENT]

[-v]

Compare methylation between two genomes by probabilities of methylation for aligned positions

optional arguments:

-h, --help

show this help message and exit

--bed1 BED1

bed file 1 with verbose output from make_bed.py

--bed2 BED2

bed file 2 with verbose output from make_bed.py

-g GENOME_ALIGNMENT, --genome_alignment GENOME_ALIGNMENT

an xmfa file from mauve (if absent, alignments assumed to be to the same reference genome)

-v, --version

print version