gwas2vcf
graalvm-ten-things
gwas2vcf | graalvm-ten-things | |
---|---|---|
1 | 1 | |
39 | 230 | |
- | 0.0% | |
0.0 | 0.0 | |
about 1 year ago | over 4 years ago | |
Python | C | |
MIT License | Apache License 2.0 |
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gwas2vcf
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Nuitka: An extremely compatible Python compiler
Here is the original repo I have tried to speed up using:
python -m nuitka --clang --follow-imports main.py
repo: https://github.com/MRCIEU/gwas2vcf
If someone can make the program run faster by whatever means, it will make a bunch of people quite happy.
graalvm-ten-things
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Nuitka: An extremely compatible Python compiler
It interprets LLVM bitcode: https://github.com/graalvm/graalvm-ten-things/blob/master/RE....
What are some alternatives?
TileDB-VCF - Efficient variant-call data storage and retrieval library using the TileDB storage library.
quickjs - Public repository of the QuickJS Javascript Engine.
truvari - Structural variant toolkit for VCFs
Nuitka - Nuitka is a Python compiler written in Python. It's fully compatible with Python 2.6, 2.7, 3.4, 3.5, 3.6, 3.7, 3.8, 3.9, 3.10, and 3.11. You feed it your Python app, it does a lot of clever things, and spits out an executable or extension module.
pybenchmarks - Python Interpreters Benchmarks
sgkit - We've moved to https://github.com/sgkit-dev/sgkit
py2many - Transpiler of Python to many other languages
Hail - Cloud-native genomic dataframes and batch computing