https://github.com/rdmpage/dimacs-dnabarcode-challenge
Files from DIMACS 2007 DNA barcoding challenge
https://github.com/rdmpage/dimacs-dnabarcode-challenge
alignment-free dna dna-barcoding k-mer
Last synced: about 1 month ago
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Files from DIMACS 2007 DNA barcoding challenge
- Host: GitHub
- URL: https://github.com/rdmpage/dimacs-dnabarcode-challenge
- Owner: rdmpage
- Created: 2022-09-21T19:22:43.000Z (over 3 years ago)
- Default Branch: main
- Last Pushed: 2022-09-21T19:42:14.000Z (over 3 years ago)
- Last Synced: 2025-03-10T18:48:34.564Z (about 1 year ago)
- Topics: alignment-free, dna, dna-barcoding, k-mer
- Language: C
- Homepage:
- Size: 16.2 MB
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# DIMACS 2007 DNA barcoding challenge
Files from [DIMACS 2007 DNA barcoding challenge](http://dimacs.rutgers.edu/archive/Workshops/BarcodeResearchChallenges2007/) including test and training data, and code related to papers by Kuksa and Pavlovic. Source code recovered from [http://seqam.rutgers.edu/projects/bioinfo/barcoding/barcoding.html](https://web.archive.org/web/20100331174247/http://seqam.rutgers.edu/projects/bioinfo/barcoding/barcoding.html) using Wayback Machine. Software is in `SSSKernel-0.1c` folder.
> Kuksa P, Huang PH, Pavlovic V: Scalable Algorithms for String Kernels with Inexact Matching. NIPS 2008.
> Kuksa, P., Pavlovic, V. Efficient alignment-free DNA barcode analytics. BMC Bioinformatics 10 (Suppl 14), S9 (2009). [https://doi.org/10.1186/1471-2105-10-S14-S9](https://doi.org/10.1186/1471-2105-10-S14-S9)