A tool for short uORF annotation.
Project description
Description
uorf4u is a bioinformatics tool for annotation conserved upstream ORFs.
Programming languages: Python3
OS: MacOS, Linux
Python dependencies: biopython, configs, argparse, statistics, logomaker, matplotlib, pandas
R dependencies: ggmsa, ggplot2, optparse
OS-level dependencies: muscle
License: WTFPL
Version: 0.3.1 (August 2022)
Data analysis pipeline:
Installation
- The most stable release of uorf4u can be installed directly from pypi:
python3 -m pip install uorf4u
- The development version is available at github :
git clone https://github.com/art-egorov/uorf4u.git
cd uorf4u
python3 -m pip install --upgrade pip
python3 -m pip install wheel
python3 setup.py sdist bdist_wheel
python3 -m pip install -e .
Reference
If you find uorf4u useful, please cite:
Artyom A. Egorov, Gemma C. Atkinson uorf4u: ..., ---, doi
Contact
Please contact us by e-mail artemdotegorovATmeddotludotse or use Issues to report any technical problems.
Authors
uorf4u is developed by Artyom Egorov at the Atkinson Lab, Department of Experimental Medical Science, Lund University, Sweden. We are open for suggestions to extend and improve svist4get functionality. Please don't hesitate to share your ideas or feature requests.
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