/covvfit

Fitness estimates of SARS-CoV-2 variants

Primary LanguagePythonMIT LicenseMIT

Project Status: WIP – Initial development is in progress, but there has not yet been a stable, usable release suitable for the public. build Ruff Code style: black

covvfit

Fitness estimates of SARS-CoV-2 variants.

Installation

Developers

Create a new environment, e.g., using Micromamba:

$ micromamba create -n covvfit -c conda-forge python=3.11

Then, install the package.

For a machine where development happens it comes with developer utilities:

$ pip install poetry
$ poetry install --with dev
$ pre-commit install

See Also

  • V-pipe: a bioinformatics pipeline for viral sequencing data.
  • cojac: command-line tools for the analysis of co-occurrence of mutations on amplicons.