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GitHub / wilhelm-lab / oktoberfest

Rescoring and spectral library generation pipeline for proteomics.

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/wilhelm-lab%2Foktoberfest

Stars: 26
Forks: 7
Open Issues: 38

License: mit
Language: Python
Repo Size: 19.9 MB
Dependencies: 222

Created: over 1 year ago
Updated: 4 days ago
Last pushed: 5 days ago
Last synced: 4 days ago

Files

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Readme

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Dependencies

requirements.txt pypi

PyYAML >=5.4.1
click >=8.0.0
matplotlib >=3.6.3
mokapot >=0.9.1
rich >=10.3.0
seaborn >=0.12.2
spectrum-fundamentals >=0.4.0
spectrum-io >=0.3.0
tritonclient >=2.34.0

.github/workflows/labeler.yml actions

actions/checkout v2.3.3 composite
crazy-max/ghaction-github-labeler v3.1.1 composite

.github/workflows/main_master_branch_protection.yml actions

actions/setup-python v2 composite
mshick/add-pr-comment v1 composite

.github/workflows/publish_docs.yml actions

actions/checkout v2 composite
actions/setup-python v1 composite
peaceiris/actions-gh-pages v3 composite

.github/workflows/publish_package.yml actions

actions/checkout v2.3.4 composite
actions/setup-python v3 composite
pypa/gh-action-pypi-publish v1.4.2 composite

.github/workflows/release_drafter.yml actions

release-drafter/release-drafter v5 composite

.github/workflows/run_cookietemple_lint.yml actions

actions/checkout v2 composite
actions/setup-python v3 composite

.github/workflows/run_tests.yml actions

actions/cache v2.1.7 composite
actions/checkout v2.3.4 composite
actions/checkout v3 composite
actions/download-artifact v3 composite
actions/setup-python v2.2.2 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2.1.0 composite

.github/workflows/sync_project.yml actions

actions/checkout v2 composite
actions/setup-python v3 composite
oleksiyrudenko/gha-git-credentials v2.1 composite

Dockerfile docker

python 3.8.12 build

docs/requirements.txt pypi

Sphinx >=4.0.1
click >=8.0.1
sphinx-automodapi >=0.13
sphinx-rtd-dark-mode >=1.2.1
sphinx_click >=3.0.0
sphinx_rtd_theme >=0.5.2

.github/workflows/build_package.yml actions

actions/checkout v3 composite
actions/setup-python v3 composite

setup.py pypi

numpy >=1.21.0,<2.0.0

pyproject.toml pypi

Jinja2 >=3.0.1 develop
Pygments >=2.8.1 develop
black >=20.8b1 develop
coverage >=5.3 develop
darglint >=1.5.8 develop
flake8 >=3.8.4 develop
flake8-bandit >=2.1.2 develop
flake8-bugbear >=21.4.3 develop
flake8-docstrings >=1.5.0 develop
flake8-rst-docstrings >=0.2.3 develop
mypy >=0.910 develop
openpyxl >=3.0.10 develop
pep8-naming >=0.11.1 develop
pre-commit >=2.11.1 develop
pre-commit-hooks >=4.0.1 develop
pytest >=6.2.3 develop
pyupgrade >=2.31.0 develop
safety >=1.9.0 develop
sphinx >=4.0.2 develop
sphinx-autobuild >=2021.3.14 develop
sphinx-click >=3.0.0 develop
sphinx-rtd-dark-mode >=1.2.3 develop
sphinx-rtd-theme >=0.5.0 develop
typeguard >=2.12.0 develop
types-attrs >=19.1.0 develop
types-pkg-resources >=0.1.2 develop
types-requests >=2.25.2 develop
xdoctest >=0.15.0 develop
PyYAML >=5.4.1
click >=8.0.0
matplotlib ^3.6.3
mokapot ^0.9.1
numpy <1.25
python >=3.8.0,<3.11.0
rich >=10.3.0
seaborn ^0.12.2
spectrum-fundamentals ^0.4.2
spectrum-io ^0.3.0
tritonclient ^2.34.0

poetry.lock pypi

140 dependencies