CLARK specifications

Unique identifier:
OMICS_07821
Software type:
Package/Module
Restrictions to use:
None
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:
C++
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Name:
CLAssifier based on Reduced K-mers
Interface:
Command line interface
Input data:
Reference DNA/RNA sequences, database
Operating system:
Unix/Linux, Mac OS
License:
GNU General Public License version 3.0
Version:
1.2.3.2
Requirements:
GNU GCC

versioning

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No versioning.

CLARK distribution

download

CLARK support

Maintainer

  • CLARK <>

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Publications

Institution(s)

Department of Computer Science & Engineering, University of California, Riverside, CA, USA; Department of Plant & Botanic Sciences, University of California, Riverside, CA, USA

Funding source(s)

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).

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senaj

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Extremely fast metagenomic read classifier. However, it use a large amount of memory to create an index from all of NCBI's bacterial genomes.

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