HiDe 20120609 – Infer Highways of Horizontal Gene Transfer in the Evolutionary History of a set of Species

HiDe 20120609

:: DESCRIPTION

HiDe (short for Highway Detection) is a software package for inferring highways of horizontal gene transfer in the evolutionary history of a set of species. HiDe takes as input a collection of unrooted gene trees along with a rooted species tree.

::DEVELOPER

Ron Shamir’s lab

:: SCREENSHOTS

N/A

::REQUIREMENTS

  • Windows/Linux

:: DOWNLOAD

 HiDe 

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Mar 1;29(5):571-9. doi: 10.1093/bioinformatics/btt021. Epub 2013 Jan 17.
Systematic inference of highways of horizontal gene transfer in prokaryotes.
Bansal MS, Banay G, Harlow TJ, Gogarten JP, Shamir R.

eGATU – easy Genome Annotation Transfer Utility

eGATU

:: DESCRIPTION

eGATU (easy Genome Annotation Transfer Utility) is a light application modelled on GATU. It allows users to transfer annotations to an input genome without having to specify a reference.

::DEVELOPER

the Upton lab

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Java

:: DOWNLOAD

eGATU

:: MORE INFORMATION

GATU – Genome Annotation Transfer Utility

GATU

:: DESCRIPTION

GATU (Genome Annotation Transfer Utility) annotates a genome based on a very closely related reference genome. The proteins/mature peptides of the reference genome are BLASTed against the genome to be annotated in order to find the genes/mature peptides in the genome to be annotated.

::DEVELOPER

the Upton lab

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Java

:: DOWNLOAD

GATU

:: MORE INFORMATION

Citation:

Tcherepanov, T., Ehlers, A. and Upton, C. 2006.
Genome Annotation Transfer Utility (GATU): Rapid annotation of viral genomes using a closely related reference genome. BMC Genomics 7:150.