Tag: Genes

ParGenes 1.1.0 – Model Selection and Tree Inference on thousands of Genes

ParGenes 1.1.0

:: DESCRIPTION

ParGenes is a tool for massively parallel model selection and phylogenetic tree inference on thousands of genes, using ModelTest-NG and RAxML-NG.

::DEVELOPER

the Exelixis Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOs

:: DOWNLOAD

ParGenes

:: MORE INFORMATION

Citation

Bioinformatics. 2019 May 15;35(10):1771-1773. doi: 10.1093/bioinformatics/bty839.
ParGenes: a tool for massively parallel model selection and phylogenetic tree inference on thousands of genes.
Morel B, Kozlov AM, Stamatakis A.

GreenGenie 2 – Predicting Genes in Chlamydomonas Reinhardtii

GreenGenie2

:: DESCRIPTION

GreenGenie2 is a tool for predicting genes in Chlamydomonas reinhardtii

::DEVELOPER

Stormo Lab in Department of Genetics, Washington University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Genomics. 2009 May 7;10:210. doi: 10.1186/1471-2164-10-210.
Improving gene-finding in Chlamydomonas reinhardtii:GreenGenie2.
Kwan AL, Li L, Kulp DC, Dutcher SK, Stormo GD.

Prodesign 1.0 – Generate Oligonucleotide Probes for Genes and Gene Families

Prodesign 1.0

:: DESCRIPTION

Prodesign is used to generate oligonucleotide probes for genes and gene families

ProDesign Web Server

::DEVELOPER

The Tillier Group

:: SCREENSHOTS

prodesign

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 Prodesign

:: MORE INFORMATION

Citation:

Bioinformatics. 2007 May 15;23(10):1195-202. Epub 2007 Mar 28.
A fast and flexible approach to oligonucleotide probe design for genomes and gene families.
Feng S, Tillier ER.

CGI – Prioritize Genes by Integrating Expression data and Protein Interaction data

CGI

:: DESCRIPTION

CGI (Combining Gene expression and protein Interaction data) is intended to implement a new approach to prioritize genes by integrating expression data and protein interaction data.

::DEVELOPER

Fengzhu Sun

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 CGI

:: MORE INFORMATION

Citation

Ma XT, Lee HJ, Wang L, and Sun FZ
CGI: a new approach for prioritizing genes by Combining Gene expression and protein-protein Interaction data
Bioinformatics (2007) 23 (2): 215-221.