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nlsic

https://github.com/sgsokol/nlsic_py

Science Score: 39.0%

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 2 DOI reference(s) in README
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (7.9%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: sgsokol
  • License: other
  • Language: C
  • Default Branch: master
  • Size: 463 KB
Statistics
  • Stars: 0
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created over 5 years ago · Last pushed over 1 year ago
Metadata Files
Readme Changelog

README.hmtl 

NLSIC stands for "Non-linear Least Squares with Inequality Constraints". This algorithm was first published in Sokol et al. (2012) <doi:10.1093/bioinformatics/btr716>. His advantage is in combination of the following features:




    

  • Jacobi matrix J is not squared, i.e. JtJ is not calculated, thus preserving the solution from condition number degradation. Instead QR decomposition is used;
    • 

  • taking into account inequality constraints is based on a well known NNLS algorithm;
    • 

  • convergence in non-linear iterations is globalized by back-tracking method. I.e. with enough iterations, the process will reach a convergence point but no guaranty is given that it will be a global minimum;
    • 

  • if J is rank deficient, a least norm (also known as "minimum norm") increment is used. To find such increment exactly (not just a regularized one) in presence of inequality constraints is not a trivial task. We use our own algorithm implemented in lsi_ln(...) function;
    • 

  • if an initial approximation for a solution vector is outside of feasibility domain (FD) defined by inequality constraints then it is first projected on the FD (cf. ldp(...)) and the non-linear iterations start afterward.
    • 





This python version is an adaptation of the R one which is distributed with influx_si software. The original R version is in advance on this one. So users desiring to catch with the latest developments are invited to switch to R version.


The main function to call is nlsic(...).

Owner

  • Name: Serguei Sokol
  • Login: sgsokol
  • Kind: user
  • Location: Toulouse, France
  • Company: @INRAE

GitHub Events

Total
  • Push event: 5
  • Create event: 1
Last Year
  • Push event: 5
  • Create event: 1

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 6
  • Total Committers: 2
  • Avg Commits per committer: 3.0
  • Development Distribution Score (DDS): 0.333
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Sokol Serguei s****l@i****1 4
Sokol Serguei s****l@g****r 2
Committer Domains (Top 20 + Academic)
gba-03264.insa-toulouse.fr: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 0
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 0
  • Total 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
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
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Packages

  • Total packages: 1
  • Total downloads:
    • pypi 16 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 3
  • Total maintainers: 1
pypi.org: nlsic

Non-linear Least Squares with Inequality Constraints

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 16 Last month
Rankings
Dependent packages count: 10.0%
Dependent repos count: 21.7%
Forks count: 29.8%
Average: 32.8%
Stargazers count: 38.8%
Downloads: 63.7%
Maintainers (1)
sgsokol
Last synced: 10 months ago

Dependencies

pyproject.toml pypi
  • numpy >=2