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phylofisher

PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of eukaryotic protein sequences.

https://github.com/thebrownlab/phylofisher

Science Score: 67.0%

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
    Found .zenodo.json file
  • ✓
    DOI references
    Found 1 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: plos.org
  • ✓
    Committers with academic emails
    1 of 9 committers (11.1%) from academic institutions
  • ✓
    Institutional organization owner
    Organization thebrownlab has institutional domain (amoeba.msstate.edu)
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (9.3%) to scientific vocabulary

Keywords

bioinformatics phylogenomics

Keywords from Contributors

interactive serializer cycles packaging network-simulation shellcodes hacking autograding observability genomics
Last synced: 6 months ago · JSON representation

Repository

PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of eukaryotic protein sequences.

Basic Info
  • Host: GitHub
  • Owner: TheBrownLab
  • License: mit
  • Language: Python
  • Default Branch: master
  • Homepage:
  • Size: 231 MB
Statistics
  • Stars: 32
  • Watchers: 5
  • Forks: 16
  • Open Issues: 4
  • Releases: 18
Topics
bioinformatics phylogenomics
Created almost 6 years ago · Last pushed 8 months ago
Metadata Files
Readme License

README.md

PhyloFisher

<!-- Badges -->

<!-- Citation Badge --> <!-- Link to GitHub Badge --> <!-- Install with Conda Badge --> <!-- Conda Downloads Badge --> <!-- Conda Latest Release Badge --> <!-- License Badge -->

For detailed documentation, please visit: https://thebrownlab.github.io/phylofisher-pages/.

Owner

  • Name: The Brown Lab
  • Login: TheBrownLab
  • Kind: organization

GitHub Events

Total
  • Issues event: 16
  • Watch event: 1
  • Delete event: 6
  • Issue comment event: 69
  • Push event: 19
  • Pull request review comment event: 6
  • Pull request event: 16
  • Pull request review event: 25
  • Fork event: 1
  • Create event: 6
Last Year
  • Issues event: 16
  • Watch event: 1
  • Delete event: 6
  • Issue comment event: 69
  • Push event: 19
  • Pull request review comment event: 6
  • Pull request event: 16
  • Pull request review event: 25
  • Fork event: 1
  • Create event: 6

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 852
  • Total Committers: 9
  • Avg Commits per committer: 94.667
  • Development Distribution Score (DDS): 0.569
Past Year
  • Commits: 21
  • Committers: 1
  • Avg Commits per committer: 21.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Robert Jones r****0@m****u 367
David Zihala z****d@g****m 333
Robert E. Jones r****s@g****m 90
Robert E. Jones 5****s 42
M Brown p****t@l****m 10
Robert E. Jones 5****0 6
Lauren Kirsch l****6@y****m 2
kolecko007 k****o@p****z 1
dependabot[bot] 4****] 1
Committer Domains (Top 20 + Academic)
paru.cas.cz: 1 msstate.edu: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 53
  • Total pull requests: 66
  • Average time to close issues: 22 days
  • Average time to close pull requests: 10 days
  • Total issue authors: 24
  • Total pull request authors: 9
  • Average comments per issue: 4.58
  • Average comments per pull request: 0.26
  • Merged pull requests: 59
  • Bot issues: 0
  • Bot pull requests: 1
Past Year
  • Issues: 7
  • Pull requests: 5
  • Average time to close issues: 30 days
  • Average time to close pull requests: 19 days
  • Issue authors: 4
  • Pull request authors: 1
  • Average comments per issue: 7.71
  • Average comments per pull request: 2.8
  • Merged pull requests: 5
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • robert-ervin-jones (9)
  • cha-namoth (8)
  • pyongheng (5)
  • Edouard94 (4)
  • Fefocrates (3)
  • AlexGalvez (2)
  • thesamuanels (2)
  • matiasWanntorp (2)
  • VGHurdeal (2)
  • mjamy (2)
  • atice (2)
  • sipesk (1)
  • snacktavish (1)
  • Mia1349 (1)
  • aguang (1)
Pull Request Authors
  • robert-ervin-jones (58)
  • EricSalomaki (4)
  • aguang (2)
  • shuiyujinlan (2)
  • giacomomutti (2)
  • DavidZihala (1)
  • lnk1196 (1)
  • dependabot[bot] (1)
  • kolecko007 (1)
  • TrellixVulnTeam (1)
Top Labels
Issue Labels
bug (5) enhancement (3)
Pull Request Labels
dependencies (1)

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 99 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 41
  • Total maintainers: 1
pypi.org: phylofisher

PhyloFisher is a software package for the creation, analysis, and visualization of phylogenomic datasets that consist of protein sequences from eukaryotic organisms.

  • Versions: 41
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 99 Last month
Rankings
Dependent packages count: 10.0%
Forks count: 10.2%
Stargazers count: 11.9%
Average: 14.6%
Downloads: 19.3%
Dependent repos count: 21.7%
Maintainers (1)
rej110
Last synced: 7 months ago

Dependencies

setup.py pypi
  • biopython ==1.78
  • ete3 ==3.1.2
  • matplotlib ==3.4.1
  • numpy ==1.21.0
  • pandas ==1.2.4
  • pyqt5 ==5.12.3
  • scipy ==1.6.2