Tag: Kraken

Kraken 1.0 – Genomic Coordinate Translator for Comparative Genomics

Kraken 1.0

:: DESCRIPTION

Kraken is a computational genome coordinate translator that facilitates cross-species comparisons, distinguishes orthologs from paralogs, and does not require costly all-to-all whole genome mappings.

::DEVELOPER

Grabherr Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX
  • C++ Compiler

:: DOWNLOAD

 Kraken

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2014 Jun 30;15:227. doi: 10.1186/1471-2105-15-227.
A universal genomic coordinate translator for comparative genomics.
Zamani N1, Sundström G, Meadows JR, Höppner MP, Dainat J, Lantz H, Haas BJ, Grabherr MG.

Kraken 13-274 – Tools for Quality Control and Analysis of High-throughput Sequence data

Kraken 13-274

:: DESCRIPTION

Kraken consists of 3 tools ( Reaper ,  Tally  and  Sequence Imp ) designed to streamline the analysis of next-generation sequencing data. Although designed with small RNA sequence analysis in mind the tools can be used to address issues facing next-generation sequencing in general.

::DEVELOPER

Enright Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • MacOsX /  Linux

:: DOWNLOAD

 Kraken

:: MORE INFORMATION

Citation:

Kraken: A set of tools for quality control and analysis of high-throughput sequence data
Matthew P.A. Davis, Stijn van Dongen, Cei Abreu-Goodger, Nenad Bartonicek and Anton J. Enright
Methods. 2013 Sep 1;63(1):41-9. doi: 10.1016/j.ymeth.2013.06.027. Epub 2013 Jun 29.

Kraken 1.1.1 – Kraken Taxonomic Sequence Classification System

Kraken 1.1.1

:: DESCRIPTION

Kraken is a very fast system for taxonomic classification of short or long DNA sequences from a microbiome or metagenomic sample.

::DEVELOPER

The Center for Computational Biology at Johns Hopkins University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Mac OsX

:: DOWNLOAD

 Kraken

:: MORE INFORMATION

Citation

Genome Biol. 2014 Mar 3;15(3):R46. doi: 10.1186/gb-2014-15-3-r46.
Kraken: ultrafast metagenomic sequence classification using exact alignments.
Wood DE, Salzberg SL.