https://github.com/gagniuc/3d-objective-digital-stains-local-frequency

A 3D Objective Digital Stain is able to show the information structure of a DNA or RNA sequence in a graphical manner. In this case, the ODS uses the global frequency of symbols (A, T/U, C, G) from the input sequence to calculate the local frequency of these symbols from a sliding window.
https://github.com/gagniuc/3d-objective-digital-stains-local-frequency

digital dna information js objective ods patterns rna stains

Last synced: 3 months ago
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A 3D Objective Digital Stain is able to show the information structure of a DNA or RNA sequence in a graphical manner. In this case, the ODS uses the global frequency of symbols (A, T/U, C, G) from the input sequence to calculate the local frequency of these symbols from a sliding window.

• Host: GitHub
• URL: https://github.com/gagniuc/3d-objective-digital-stains-local-frequency
• Owner: Gagniuc
• License: mit
• Created: 2021-11-15T18:11:05.000Z (over 3 years ago)
• Default Branch: main
• Last Pushed: 2022-03-21T09:31:29.000Z (about 3 years ago)
• Last Synced: 2025-01-15T07:32:04.660Z (5 months ago)
• Topics: digital, dna, information, js, objective, ods, patterns, rna, stains
• Language: HTML
• Homepage:
• Size: 22.5 KB
• Stars: 2
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • Funding: .github/FUNDING.yml
  • License: LICENSE.md

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README

        
# 3D Objective Digital Stains & local frequency

A 3D Objective Digital Stain is able to show the information structure of a DNA or RNA sequence in a graphical manner. In this case, the ODS uses the global frequency of symbols  (A, T/U, C, G) from the input sequence to calculate the local frequency of these symbols from a sliding window. In the 3D version, the overlapping values (similar sliding windows) are represented by a gradient from black to red.

# Live demo

https://gagniuc.github.io/3D-Objective-Digital-Stains-local-frequency/

# Screenshot



# References

- Paul A. Gagniuc. Algorithms in Bioinformatics: Theory and Implementation. John Wiley & Sons, Hoboken, NJ, USA, 2021, ISBN: 9781119697961.