- Unique identifier:
- Software type:
- Restrictions to use:
- Input format:
- Accepts inputs in FASTA/FASTQ format. Alternatively the input can be given as a text file containing the k-mer distribution (i.e., each line contains a k-mer and its number of occurrences).
- Programming languages:
- Computer skills:
- CLAssifier based on Reduced K-mers
- Command line interface
- Input data:
- Reference DNA/RNA sequences, database
- Operating system:
- Unix/Linux, Mac OS
- GNU General Public License version 3.0
- GNU GCC
- CLARK <>
(Ounit et al., 2015)
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers.
PMID: 25879410 DOI: 10.1186/s12864-015-1419-2
(Ounit and Lonardi, 2016)
Higher classification sensitivity of short metagenomic reads with CLARK-S.
Department of Computer Science & Engineering, University of California, Riverside, CA, USA; Department of Plant & Botanic Sciences, University of California, Riverside, CA, USA
This project was funded in part by USDA, "Advancing the Barley Genome" (2009- 65300-05645) and by NSF, "ABI Innovation: Barcoding-Free Multiplexing: Leveraging Combinatorial Pooling for High-Throughput Sequencing" (DBI-1062301) and "III: Algorithms and Software Tools for Epigenetics Research" (IIS-1302134).