Tag: Gecko

GECKO – GEnetic Classification using k-mer Optimization

GECKO

:: DESCRIPTION

GECKO is a genetic algorithm toclassify and extract meaningful sequences from multiple types of sequencing approaches including mRNA, microRNA, and DNA methylome data.

::DEVELOPER

GECKO team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Java

:: DOWNLOAD

GECKO

:: MORE INFORMATION

Citation

Thomas A, Barriere S, Broseus L, Brooke J, Lorenzi C, Villemin JP, Beurier G, Sabatier R, Reynes C, Mancheron A, Ritchie W.
GECKO is a genetic algorithm to classify and explore high throughput sequencing data.
Commun Biol. 2019 Jun 20;2:222. doi: 10.1038/s42003-019-0456-9. PMID: 31240260; PMCID: PMC6586863.

GECKO 20050621 – Large-scale Gene Expression Analysis Platform

GECKO 20050621

:: DESCRIPTION

Gecko (Gene Expression: Computation and Knowledge Organization) is a complete, high-capacity centralized gene expression analysis system, developed in response to the needs of a distributed user community.

::DEVELOPER

GECKO team

:: SCREENSHOTS

GECKO1

:: REQUIREMENTS

  • WIndows/ linux
  • Apach
  • Java
  • Perl
  • C++ Compiler

:: DOWNLOAD

 GECKO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2004 Dec 10;5:195.
GECKO: a complete large-scale gene expression analysis platform.
Theilhaber J, Ulyanov A, Malanthara A, Cole J, Xu D, Nahf R, Heuer M, Brockel C, Bushnell S.

Gecko 2.0 – Gene Cluster Detection in Prokaryotic Genomes

Gecko 2.0

:: DESCRIPTION

Gecko is a further development of the original Gecko software. It allows for the systematic detection of gene cluster conservation in a large number of genomes. The enhancement over the original Gecko tool is the use of set-distance based gene cluster models that allow for the detection of gene clusters with diverse conservation patterns including gaps and missing genes in cluster occurrences. It is also tolerant of errors in gene homology assignment.

::DEVELOPER

Katharina Jahn and Leon Kuchenbecker

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Mac / Windows
  • Java

:: DOWNLOAD

Gecko

:: MORE INFORMATION

Citation

Computation of median gene clusters
S. Böcker, K. Jahn, J. Mixtacki, and J. Stoye. J. Comp. Biol., 16(8):1085-1099, 2009.