enrich2

Tool for deep mutational scanning experiments.

https://github.com/fowlerlab/enrich2

Science Score: 75.0%

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

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CITATION.cff file
Found CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
Found 5 DOI reference(s) in README
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Academic publication links
Links to: zenodo.org
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Academic email domains
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Institutional organization owner
Organization fowlerlab has institutional domain (faculty.washington.edu)
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (13.4%) to scientific vocabulary

Last synced: 7 months ago · JSON representation ·

Repository

Tool for deep mutational scanning experiments.

Basic Info

Host: GitHub
Owner: FowlerLab
License: bsd-3-clause
Language: Python
Default Branch: main
Homepage:
Size: 3.74 MB

Statistics

Stars: 52
Watchers: 7
Forks: 14
Open Issues: 20
Releases: 11

Created over 9 years ago · Last pushed about 1 year ago

Metadata Files

Readme Contributing License Code of conduct Citation

Enrich2

Enrich2 is a general software tool for processing, analyzing, and visualizing data from deep mutational scanning experiments. For more information or to cite Enrich2, please refer to A statistical framework for analyzing deep mutational scanning data.

Enrich2 documentation is available on Read the Docs.

An example dataset is available at the Enrich2-Example GitHub repository.

Thanks to the efforts of Chris Macdonald, Enrich2 is now able to run under modern versions of Python as of v2.0.0!

Installation and dependencies

Enrich2 runs on Python 3 (v2.0.0 and higher) and requires the following packages:

The configuration GUI requires Tkinter. Building a local copy of the documentation requires Sphinx.

Enrich2 can be installed in a new virtual environment using pip:

python3 -m venv e2env
source e2env/bin/activate
pip install enrich2

You should now be able to launch the Enrich2 graphical user interface by typing enrich_gui or the command line interface by typing enrich_cmd.

For additional information consult the online documentation.

Questions?

Please use the GitHub Issue Tracker to file bug reports or request features.

Enrich2 was written by Alan F Rubin.

Owner

Name: Fowler Lab
Login: FowlerLab
Kind: organization
Email: dfowler@uw.edu
Location: Seattle, Washington, USA

Website: http://faculty.washington.edu/dfowler/index.html
Repositories: 14
Profile: https://github.com/FowlerLab

Laboratory of Douglas M. Fowler in the Department of Genome Sciences at the University of Washington.

Citation (CITATION.cff)

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Rubin"
  given-names: "Alan F"
  orcid: "https://orcid.org/0000-0003-1474-605X"
title: "Enrich2"
version: 1.3.1
doi: 10.5281/zenodo.3742545
date-released: 2020-04-07
url: "https://github.com/FowlerLab/Enrich2"
preferred-citation:
  type: article
  authors:
  - family-names: "Rubin"
    given-names: "Alan F"
    orcid: "https://orcid.org/0000-0003-1474-605X"
  - family-names: "Gelman"
    given-names: "Hannah"
  - family-names: "Lucas"
    given-names: "Nathan"
  - family-names: "Bajjalieh"
    given-names: "Sandra M"
  - family-names: "Papenfuss"
    given-names: "Anthony T"
    orcid: "https://orcid.org/0000-0002-1102-8506"
  - family-names: "Speed"
    given-names: "Terence P"
    orcid: "https://orcid.org/0000-0002-5403-7998"
  - family-names: "Fowler"
    given-names: "Douglas M"
    orcid: "https://orcid.org/0000-0001-7614-1713"
  doi: "10.1186/s13059-017-1272-5"
  journal: "Genome Biology"
  month: 8
  start: 150
  title: "A statistical framework for analyzing deep mutational scanning data"
  issue: 1
  volume: 18
  year: 2017

GitHub Events

Total

Create event: 6
Release event: 3
Issues event: 6
Watch event: 10
Delete event: 5
Issue comment event: 8
Push event: 9
Pull request event: 12
Fork event: 2

Last Year

Create event: 6
Release event: 3
Issues event: 6
Watch event: 10
Delete event: 5
Issue comment event: 8
Push event: 9
Pull request event: 12
Fork event: 2

Issues and Pull Requests

Last synced: 7 months ago

All Time

Total issues: 2
Total pull requests: 4
Average time to close issues: 3 days
Average time to close pull requests: 7 days
Total issue authors: 2
Total pull request authors: 1
Average comments per issue: 2.0
Average comments per pull request: 0.0
Merged pull requests: 3
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 2
Pull requests: 4
Average time to close issues: 3 days
Average time to close pull requests: 7 days
Issue authors: 2
Pull request authors: 1
Average comments per issue: 2.0
Average comments per pull request: 0.0
Merged pull requests: 3
Bot issues: 0
Bot pull requests: 0

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Top Authors

Issue Authors

yinshiyi (2)
D-A-E-U-N-NOH (1)
shesanIsland (1)
Ctangermann (1)
adalisan (1)
kevinmyers (1)
ijhoskins (1)
eaconley (1)
amirTaslim (1)
rmenafra (1)
msmcclain (1)
hezscha (1)

Pull Request Authors

afrubin (4)
odcambc (1)

Top Labels

Issue Labels

bug (1)

Pull Request Labels

Packages

Total packages: 1
Total downloads:
- pypi 60 last-month

Total dependent packages: 0
Total dependent repositories: 0
Total versions: 3
Total maintainers: 1

pypi.org: enrich2

Analysis program for calculating variant scores from deep mutational scanning data.

Homepage: https://github.com/FowlerLab/Enrich2/
Documentation: https://enrich2.readthedocs.io/
License: bsd-3-clause
Latest release: 2.0.2
published about 1 year ago

Versions: 3
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 60 Last month

Rankings

Dependent packages count: 9.9%

Average: 32.7%

Dependent repos count: 55.5%

Maintainers (1)

afrubin