CLARK specifications

Information


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

Subtools


  • CLARK-I
  • CLARK-S

Download


Versioning


Add your version

Maintainer


  • person_outline CLARK <>

Publications for CLAssifier based on Reduced K-mers

CLARK institution(s)
Department of Computer Science & Engineering, University of California, Riverside, CA, USA; Department of Plant & Botanic Sciences, University of California, Riverside, CA, USA
CLARK 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).

CLARK review

star_border star_border star_border star_border star_border
star star star star star

senaj

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