Data

Tools

Indexes

Applications

Experiments

Open Source Science

https://github.com/biocore/calour

exploratory and interactive microbiome analyses based on heatmaps

https://github.com/biocore/calour

Science Score: 23.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    3 of 8 committers (37.5%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (4.8%) to scientific vocabulary

Keywords

bioinformatics exploratory heatmap jupyter-notebook microbiome
Last synced: 5 months ago · JSON representation

Repository

exploratory and interactive microbiome analyses based on heatmaps

Basic Info
  • Host: GitHub
  • Owner: biocore
  • License: bsd-3-clause
  • Language: Python
  • Default Branch: master
  • Size: 42 MB
Statistics
  • Stars: 27
  • Watchers: 13
  • Forks: 22
  • Open Issues: 67
  • Releases: 4
Topics
bioinformatics exploratory heatmap jupyter-notebook microbiome
Created about 10 years ago · Last pushed about 1 year ago
Metadata Files
Readme Changelog Contributing License

README.md

CALOUR

Binder Build Status Coverage Status

exploratory and interactive microbiome analysis based on heatmaps

Installation

Documentation

Mouse & Keyboard Operation

Change History

How to Contribute

Please Cite

Xu ZZ, Amir A, Sanders J, Zhu Q, Morton JT, Bletz MC, Tripathi A, Huang S, McDonald D, Jiang L, et al. (2019) Calour: an Interactive, Microbe-Centric Analysis Tool. mSystems, 4, e00269-18.

Owner

  • Name: biocore
  • Login: biocore
  • Kind: organization
  • Location: Cyberspace

Collaboratively developed bioinformatics software.

GitHub Events

Total
  • Push event: 3
  • Pull request event: 5
  • Create event: 2
Last Year
  • Push event: 3
  • Pull request event: 5
  • Create event: 2

Committers

Last synced: 7 months ago

All Time
  • Total Commits: 571
  • Total Committers: 8
  • Avg Commits per committer: 71.375
  • Development Distribution Score (DDS): 0.427
Past Year
  • Commits: 9
  • Committers: 1
  • Avg Commits per committer: 9.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Zech Xu z****u@g****m 327
amnona a****m@g****m 219
Serene Jiang s****0@g****m 13
maque4004 y****u@h****m 6
SJ-Wang-tech 7****h 2
Jamie Morton j****n@e****u 2
adswafford a****d@u****u 1
Tomasz t****k@u****u 1
Committer Domains (Top 20 + Academic)
ucsd.edu: 2 eng.ucsd.edu: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 61
  • Total pull requests: 66
  • Average time to close issues: 6 months
  • Average time to close pull requests: about 1 month
  • Total issue authors: 6
  • Total pull request authors: 4
  • Average comments per issue: 0.25
  • Average comments per pull request: 0.97
  • Merged pull requests: 59
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 5
  • Average time to close issues: N/A
  • Average time to close pull requests: less than a minute
  • Issue authors: 1
  • Pull request authors: 1
  • Average comments per issue: 0.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 4
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • amnona (50)
  • baobabprince (6)
  • DrJStrudwick (2)
  • RNAer (1)
  • tanaes (1)
  • hlee885 (1)
Pull Request Authors
  • amnona (71)
  • RNAer (6)
  • SJ-Wang-tech (2)
  • maque4004 (1)
Top Labels
Issue Labels
bug (20) enhancement (16)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 52 last-month
  • Total dependent packages: 2
  • Total dependent repositories: 4
  • Total versions: 3
  • Total maintainers: 1
pypi.org: calour

CALOUR: exploratory and interactive microbiome analyses based on heatmap

  • Versions: 3
  • Dependent Packages: 2
  • Dependent Repositories: 4
  • Downloads: 52 Last month
Rankings
Dependent packages count: 3.1%
Dependent repos count: 7.5%
Forks count: 8.1%
Average: 9.2%
Stargazers count: 12.3%
Downloads: 15.1%
Maintainers (1)
zhenjiang.xu
Last synced: 6 months ago

Dependencies

ci/conda_requirements.txt pypi
  • biom-format *
  • coverage *
  • docrep *
  • flake8 *
  • h5py *
  • ipywidgets *
  • matplotlib *
  • nbsphinx *
  • numpy *
  • pandas *
  • pep8 *
  • pyqt >=5
  • pytest *
  • pytest-cov *
  • scikit-bio >=0.5.1
  • scikit-learn *
  • scipy *
  • sphinx *
  • sphinx-autodoc-typehints *
  • sphinx_bootstrap_theme *
  • statsmodels *
setup.py pypi
  • biom-format *
  • docrep *
  • matplotlib *
  • numpy *
  • pandas *
  • scikit-learn *
  • scipy *
  • statsmodels *
.github/workflows/python-publish.yml actions
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
  • pypa/gh-action-pypi-publish 27b31702a0e7fc50959f5ad993c78deac1bdfc29 composite
ci/pip_requirements.txt pypi
binder/environment.yml conda
  • biom-format
  • ipympl
  • ipywidgets
  • matplotlib >=2.0
  • numpy
  • pandas
  • pip
  • pyqt >=5
  • python
  • scikit-bio >=0.5.1
  • scikit-learn >=0.19
  • scipy
  • statsmodels