Detect synonymous genetic variants in VCF
Project description
VCFSYNONYMOUS
Giving .gff3 and .fasta files of a genome and .vcf detected SNPs onto this genome, VCFSYNONYMOUS returns two .vcf files. The first one contains synonymous SNPs and the second one contains non-synonymous SNPs.
INSTALLATION
pip3 install vcfsynonymous
GET STARTED
vcfsynonymous --vcf tests/data/sample.vcf \
--genome tests/data/genome.fasta \
--annotation tests/data/genome.gff3
python -m vcfsynonymous --vcf tests/data/sample.vcf \
--genome tests/data/genome.fasta \
--annotation tests/data/genome.gff3 \
--output_prefix res
upload package
pip3 uninstall vcfsynonymous
rm -rf build/
rm -rf dist/
rm -rf vcfsynonymous.egg-info/
python setup.py sdist bdist_wheel
pip3 install .
twine upload dist/*
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