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This project exists only to ensure that the top-level biocommons namespace is correctly declared as a namespace package.

This trivial package was pushed to pypi in order to reserve the biocommons namespace (contributions are welcome!).

Steps:

pyvenv venv
source venv/bin/activate
pip install wheel
python setup.py register
python setup.py sdist bdist bdist_egg bdist_wheel upload

biocommons's Projects

.github icon .github

Organization-wide GitHub configuration

anyvar icon anyvar

[in development] Proof-of-Concept variation translation, validation, and registration service

biocommons-python icon biocommons-python

Declares/reserves "biocommons" for namespace packages only; see other repos for specific functionality

biocommons.example icon biocommons.example

Template for new biocommons packages, and source of configuration for periodic updates to derived packages

biocommons.seqrepo icon biocommons.seqrepo

non-redundant, compressed, journalled, file-based storage for biological sequences

bioutils icon bioutils

provides common tools and lookup tables used primarily by the hgvs and uta packages

eutils icon eutils

simplified searching, fetching, and parsing records from NCBI using their E-utilities interface

hgvs icon hgvs

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

hgvs-eval icon hgvs-eval

automated evaluation suite to assess tools that manipulate HGVS formatted variants

hgvs-installation-test icon hgvs-installation-test

Verify that the supported installation method ('pip install --upgrade setuptools; pip install hgvs') works.

logos icon logos

biocommons logos and logo-generation code

mirrors-ncbi icon mirrors-ncbi

Makefile (of all things) to space-efficiently mirror selected NCBI resources

uta icon uta

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

uta-align icon uta-align

C-based Needleman-Wunsch and Smith-Waterman alignment algorithms with a Python interface.

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