ena-utils is a small python package that provides a CLI to submit nucleotides sequences to the European Nucleotide Archive (ENA).
The goals of this package are:
- To facilitate the submission of large numbers of objects
- To ease the exploitation of the ENA metadata schema to its full potential (see the Future developments section below)
This is an early development version that provides only minimal features.
Supported submission types
- Non-multiplexed paired-end sequencing reads
- File upload
- Study registration
- Experiment registration
- Run registration
- Sample registration
- Webin account
The latest release is available on PyPI and can be installed using
$ pip install ena-utils
Isolated environments using
Install and execute ena-utils in an isolated environment using
and make sure that the
$PATH is correctly configured.
$ python3 -m pip install --user pipx $ pipx ensurepath
pipx is installed use following command to install
$ pipx install ena-utils $ which ena-utils ~/.local/bin/ena-utils
The latest documentation is available at https://readthedocs.org.
- Auto-generation of the CLI and objects lists templates from the ENA schema XSD files.