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sopnmf

SOPNMF is the fast python implementation of stochastic orthogonally projective non-negative matrix factorization

https://github.com/anbai106/sopnmf

Science Score: 77.0%

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

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 4 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: scholar.google, sciencedirect.com
  • ✓
    Committers with academic emails
    2 of 4 committers (50.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (9.9%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

SOPNMF is the fast python implementation of stochastic orthogonally projective non-negative matrix factorization

Basic Info
Statistics
  • Stars: 6
  • Watchers: 1
  • Forks: 2
  • Open Issues: 2
  • Releases: 0
Created over 5 years ago · Last pushed about 2 years ago
Metadata Files
Readme License Citation

README.md

SOPNMF Logo
SOPNMF

Stochastic orthogonally projective non-negative matrix factorization

Documentation

About the project

SOPNMF is the python implementation of the Matlab version of Orthogonal Projective Non-negative Matrix Factorization: brainparts, and its stochastic extension.

Citing this work

:warning: Please let me know if you use this package for your publication; I will update your papers in the section of Publication around SOPNMF...

:warning: Please cite the software using the Cite this repository button on the right sidebar menu, as well as the original papers below for different tasks...

Original papers

Wen, J., Nasrallah, I.M., Abdulkadir, A., Satterthwaite, T.D., Yang, Z., Erus, G., Robert-Fitzgerald, T., Singh, A., Sotiras, A., Boquet-Pujadas, A. and Mamourian, E., 2023. Genomic loci influence patterns of structural covariance in the human brain. Proceedings of the National Academy of Sciences, 120(52), p.e2300842120. doi.org/10.1073/pnas.2300842120

Sotiras, A., Resnick, S.M. and Davatzikos, C., 2015. Finding imaging patterns of structural covariance via non-negative matrix factorization. Neuroimage, 108, pp.1-16. doi:10.1016/j.neuroimage.2014.11.045

Publications around SOPNMF

Wen, J., Varol, E., Sotiras, A., Yang, Z., Chand, G.B., Erus, G., Shou, H., Abdulkadir, A., Hwang, G., Dwyer, D.B. and Pigoni, A., 2022. Multi-scale semi-supervised clustering of brain images: deriving disease subtypes. Medical Image Analysis, 75, p.102304. - Link

Owner

  • Name: Junhao (Hao) WEN
  • Login: anbai106
  • Kind: user
  • Location: NYC
  • Company: Columbia University

Medical Imaging Analysis, AI/ML, Multi-omics, Multi-organ

Citation (CITATION.cff) 

abstract: "This is my SOPNMF software for research purposes only..."
authors:
  - family-names: Wen
    given-names: Junhao
    orcid: "https://orcid.org/0000-0003-2077-3070"
cff-version: 1.2.0
version: 0.0.4
date-released: "2023-09-24"
keywords:
  - "matrix factorization"
  - research
license: MIT
message: "If you use this software, please cite it using these metadata."
repository-code: "https://github.com/anbai106/SOPNMF"
title: "sopnmf"

GitHub Events

Total
  • Watch event: 1
Last Year
  • Watch event: 1

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 92
  • Total Committers: 4
  • Avg Commits per committer: 23.0
  • Development Distribution Score (DDS): 0.185
Top Committers
Name Email Commits
anbai106 a****6@h****m 75
Hao h****o@c****u 12
Junhao WEN j****9@g****m 3
Junhao Wen Junhao.Wen@Pennmedicine.upenn.edu w****u@c****u 2
Committer Domains (Top 20 + Academic)
cubic-login1.uphs.upenn.edu: 1 cbica-dav-pc01.uphs.upenn.edu: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 3
  • Total pull requests: 3
  • Average time to close issues: 4 months
  • Average time to close pull requests: 5 months
  • Total issue authors: 2
  • Total pull request authors: 1
  • Average comments per issue: 2.0
  • Average comments per pull request: 0.67
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 3
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • YuYT98 (2)
  • tongluobing (1)
Pull Request Authors
  • dependabot[bot] (3)
Top Labels
Issue Labels
Pull Request Labels
dependencies (3)

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 11 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 4
  • Total maintainers: 1
pypi.org: sopnmf

Stochastic Orthogonal Projective Non-negative Matrix Factorization

  • Versions: 4
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 11 Last month
Rankings
Dependent packages count: 10.0%
Dependent repos count: 21.7%
Forks count: 22.6%
Stargazers count: 23.0%
Average: 25.1%
Downloads: 48.2%
Maintainers (1)
anbai106
Last synced: 6 months ago

Dependencies

requirements.txt pypi
  • nibabel *
  • numpy ==1.17.2
  • pandas *
  • pytorch *
  • scipy ==1.3.1
  • tensorboardX *
setup.py pypi