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Python bindings to spoa

Project description

pyspoa

test-pyspoa PyPI version

Python bindings to spoa.

Installation

$ pip install pyspoa

Usage

>>> from spoa import poa
>>>
>>> consensus, msa = poa(['AACTTATA', 'AACTTATG', 'AACTATA'])
>>> consensus
'AACTTATA'
>>> msa
['AACTTATA-', 'AACTTAT-G', 'AAC-TATA-']
>>> print(os.linesep.join(msa))
AACTTATA-
AACTTAT-G
AAC-TATA-

Developer Quick Start

$ git clone --recursive https://github.com/nanoporetech/pyspoa.git
$ cd pyspoa
$ python3 -m venv pyspoa
$ source pyspoa/bin/activate
(pyspoa) $ pip install -r requirements.txt
(pyspoa) $ make build

Licence and Copyright

(c) 2019 Oxford Nanopore Technologies Ltd.

pyspoa is distributed under the terms of the MIT License. If a copy of the License was not distributed with this file, You can obtain one at https://github.com/nanoporetech/pyspoa

Research Release

Research releases are provided as technology demonstrators to provide early access to features or stimulate Community development of tools. Support for this software will be minimal and is only provided directly by the developers. Feature requests, improvements, and discussions are welcome and can be implemented by forking and pull requests. However much as we would like to rectify every issue and piece of feedback users may have, the developers may have limited resource for support of this software. Research releases may be unstable and subject to rapid iteration by Oxford Nanopore Technologies.

Project details


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Files for pyspoa, version 0.0.8
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Filename, size pyspoa-0.0.8-cp36-cp36m-manylinux2010_x86_64.whl (878.1 kB) File type Wheel Python version cp36 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp37-cp37m-macosx_10_14_x86_64.whl (122.3 kB) File type Wheel Python version cp37 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp37-cp37m-manylinux2010_x86_64.whl (879.0 kB) File type Wheel Python version cp37 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp38-cp38-macosx_10_14_x86_64.whl (122.7 kB) File type Wheel Python version cp38 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp38-cp38-manylinux2010_x86_64.whl (866.8 kB) File type Wheel Python version cp38 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp39-cp39-macosx_10_14_x86_64.whl (122.9 kB) File type Wheel Python version cp39 Upload date Hashes View
Filename, size pyspoa-0.0.8-cp39-cp39-manylinux2010_x86_64.whl (867.8 kB) File type Wheel Python version cp39 Upload date Hashes View
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