Fast and optimal genome segmentation with Bayesian blocks
Project description
Fast, mathematically optimal genome segmentation with Bayesian blocks
Installation
pip install blockify
The earliest recommended version of blockify is 0.2.1.
Usage
Blockify is available as both a Python library and a command line executable.
To use in Python:
from blockify import annotation
from blockify import segmentation
from blockify import normalization
from blockify import downsampling
To use from the command line:
blockify -h
For more details, please see the documentation.
Development
To actively develop blockify, clone from GitHub and switch to the development branch:
git clone https://github.com/arnavm/blockify.git
cd blockify
git checkout dev
Unit tests are available from the top-level directory:
python -m unittest tests.test_basic
Two batteries of tests are provided: tests.test_basic
and
tests.test_advanced
. For routine development, the basic set of tests
should be sufficient. The advanced suite takes much more time and
fetches several large datasets. It is best used when making major
changes to the code.
Disclaimer
Not to be confused with the similarly-named Spotify plugin.
Project details
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