Generate interactive dotplot from mummer4 output using plotly
Project description
mummer-idotplot
Generate interactive dotplot from mummer4 output using plotly
Installation
$ pip install mummer-idotplot
plotly
is required to install.
Usage
When aligning two sequences with MUMmer4, you should set an option -F
(force 4 column output format). Also, you should not use -c
option, which change output position of match starting position.
So for example:
If you have chr1, chr2
in reference.fasta
, and contig1, contig2
in query.fasta
$ mummer -maxmatch -F -b -l 10 reference.fasta query.fasta > output.mum
$ mummer-idotplot output.mum output.html --ref chr1 chr2 --query contig1 contig2
$ open output.html
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
mummer-idotplot-0.1.2.tar.gz
(2.8 kB
view hashes)