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cmappy

Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools

https://github.com/cmap/cmappy

Science Score: 10.0%

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

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    7 of 20 committers (35.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (10.5%) to scientific vocabulary

Keywords

gct gctx gene genetics grp pandas

Keywords from Contributors

bioconductor bioinformatics cmap
Last synced: 6 months ago · JSON representation

Repository

Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools

Basic Info
Statistics
  • Stars: 133
  • Watchers: 26
  • Forks: 76
  • Open Issues: 20
  • Releases: 0
Topics
gct gctx gene genetics grp pandas
Created almost 9 years ago · Last pushed over 3 years ago
Metadata Files
Readme License

README.rst 

|install with bioconda|

.. |install with bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat-square
   :target: http://bioconda.github.io/recipes/cmappy/README.html
   
.. image:: https://badge.fury.io/py/cmapPy.svg
    :target: https://badge.fury.io/py/cmapPy

.. image:: https://travis-ci.org/cmap/cmapPy.svg?branch=master
    :target: https://travis-ci.org/cmap/cmapPy

.. image:: https://readthedocs.org/projects/cmappy/badge/?version=latest
    :target: http://cmappy.readthedocs.io/en/latest/?badge=latest
    :alt: Documentation Status

**cmapPy:** Tools for interacting with .gctx and .gct files, and other Connectivity Map resources
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
**Connectivity Map, Broad Institute of MIT and Harvard**

Documentation: ``_

For questions/problems, please add an issue (that includes code/files that reproduce your problem) to the repository. 

Contributing
====================

We welcome contributors! For your pull requests, please include the following:

* Sample code/file that reproducibly causes the bug/issue
* Documented code providing fix
* Unit tests evaluating added/modified methods. 
 

Citation
====================

If you use cmapPy and/or GCTx for your research, please cite `Enache et al.`_

.. _Enache et al.: https://academic.oup.com/bioinformatics/article/35/8/1427/5094509

Owner

  • Name: Connectivity Map at the Broad Institute
  • Login: cmap
  • Kind: organization
  • Email: clue@broadinstitute.org
  • Location: Cambridge, MA 02142

Helping drug discovery, one signature at a time

GitHub Events

Total
  • Issues event: 1
  • Watch event: 9
  • Issue comment event: 2
  • Pull request event: 2
  • Fork event: 3
Last Year
  • Issues event: 1
  • Watch event: 9
  • Issue comment event: 2
  • Pull request event: 2
  • Fork event: 3

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 347
  • Total Committers: 20
  • Avg Commits per committer: 17.35
  • Development Distribution Score (DDS): 0.715
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Oana Enache o****e@g****m 99
Saksham Malhotra s****6@g****m 66
Oana Enache o****a@b****g 43
lev l****v@b****g 37
Dave Lahr d****r@b****g 24
Dave Lahr d****r@f****m 15
naviddianati n****i@g****m 13
Matt Ruffalo m****o@g****m 11
Jacob Asiedu j****u@b****g 9
Dave Lahr g****r@x****t 6
Evan Lemire e****e@b****g 5
Lev Litichevskiy l****v 5
Anup Jonchhe a****p@w****g 4
Florian Finkernagel f****l@i****e 2
Dave Lahr g****r@x****t 2
Ted Natoli t****i@g****m 2
Adam Officer a****r@g****m 1
Darin Tay d****y@g****m 1
Valentin Bogachev 4****t 1
Navid Dianati y****u@e****m 1
Committer Domains (Top 20 + Academic)
broadinstitute.org: 5 xoxy.net: 2 imt.uni-marburg.de: 1 wma3d-d26.broadinstitute.org: 1 foghorntx.com: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 56
  • Total pull requests: 32
  • Average time to close issues: about 2 months
  • Average time to close pull requests: 27 days
  • Total issue authors: 40
  • Total pull request authors: 14
  • Average comments per issue: 1.91
  • Average comments per pull request: 2.28
  • Merged pull requests: 28
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: 1 minute
  • Issue authors: 1
  • Pull request authors: 1
  • Average comments per issue: 0.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • dllahr (6)
  • oena (5)
  • FarshidShekari (3)
  • Zethson (2)
  • dedavison (2)
  • deniseduma (2)
  • FADHLyemen (2)
  • ghost (2)
  • alex-wenzel (1)
  • LeskosekRok (1)
  • idavydov (1)
  • kai0511 (1)
  • Hoa-Lab (1)
  • xtzhang-AI4S (1)
  • ElyasMo (1)
Pull Request Authors
  • dllahr (9)
  • oena (5)
  • levlitichev (5)
  • saksham219 (3)
  • mmp3-montai (2)
  • TyberiusPrime (1)
  • EvanLemire (1)
  • adofficer (1)
  • AnupJonchhe (1)
  • mruffalo (1)
  • stuppie (1)
  • JDRomano2 (1)
  • darintay (1)
  • naviddianati (1)
Top Labels
Issue Labels
enhancement (2) bug (1)
Pull Request Labels

Packages

  • Total packages: 2
  • Total downloads:
    • pypi 2,015 last-month
  • Total dependent packages: 3
    (may contain duplicates)
  • Total dependent repositories: 1
    (may contain duplicates)
  • Total versions: 37
  • Total maintainers: 3
pypi.org: cmappy

Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools

  • Versions: 36
  • Dependent Packages: 2
  • Dependent Repositories: 1
  • Downloads: 1,907 Last month
Rankings
Dependent packages count: 3.1%
Forks count: 5.1%
Stargazers count: 6.8%
Downloads: 7.2%
Average: 8.8%
Dependent repos count: 21.7%
Maintainers (2)
AnupJonchhe oana
Last synced: 6 months ago
pypi.org: elucidatacmappy

Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools

  • Versions: 1
  • Dependent Packages: 1
  • Dependent Repositories: 0
  • Downloads: 108 Last month
Rankings
Dependent packages count: 2.9%
Downloads: 3.6%
Forks count: 5.1%
Stargazers count: 7.2%
Average: 9.9%
Dependent repos count: 30.6%
Maintainers (1)
elucidatainc
Last synced: 6 months ago

Dependencies

docs/requirements.txt pypi
  • cmapPy ==2.2.0
requirements.txt pypi
  • h5py ==2.7.0
  • numpy ==1.11.2
  • pandas ==0.20.3
  • requests ==2.20.0
setup.py pypi
  • h5py >=2.6.0
  • numpy >=1.11.2
  • pandas >=0.18
  • requests >=2.13.0
  • six *