apTreeshape 1.5-0.1 – Analyses of Phylogenetic Treeshape

apTreeshape 1.5-0.1

:: DESCRIPTION

apTreeshape is an R contributed package dedicated to simulation and analysis of phylogenetic tree topologies using statistical indices.

::DEVELOPER

the Computational and Mathematical Biology group in Grenoble

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • MacOsX / Windows/ Linux
  • R package

:: DOWNLOAD

 apTreeshape

:: MORE INFORMATION

Citation

Bioinformatics. 2006 Feb 1;22(3):363-4. Epub 2005 Dec 1.
apTreeshape: statistical analysis of phylogenetic tree shape.
Bortolussi N, Durand E, Blum M, François O.

BayesTraits 2.0 beta – Analyses of Trait Evolution among groups of Species

BayesTraits 2.0 beta

:: DESCRIPTION

BayesTraits is a computer package for performing analyses of trait evolution among groups of species for which a phylogeny or sample of phylogenies is available.

::DEVELOPER

Reading Evolutionary Biology Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux

:: DOWNLOAD

 BayesTraits

:: MORE INFORMATION

Citation

Bioinformatics. 2007 Jan 1;23(1):14-20. Epub 2006 Nov 7.
Constrained models of evolution lead to improved prediction of functional linkage from correlated gain and loss of genes.
Barker D, Meade A, Pagel M.

ngs_backbone 1.4.0 – NGS Analyses

ngs_backbone 1.4.0

:: DESCRIPTION

ngs_backbone is a bioinformatic application created to work on sequence analysis by using NGS (Next Generation Sequencing) and sanger sequences. It is capable of cleaning reads, do de novo assembly or mapping against a reference and annotate SNPs, SSRs, ORFs, GO terms and sequence descriptions.

::DEVELOPER

Bioinformatics at COMAV 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 ngs_backbone

:: MORE INFORMATION

Citation:

BMC Genomics. 2011 Jun 2;12:285. doi: 10.1186/1471-2164-12-285.
ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using next generation sequence.
Blanca JM, Pascual L, Ziarsolo P, Nuez F, Cañizares J.

 

Sib-pair 20111213 – Analyses of Family Data

Sib-pair 20111213

:: DESCRIPTION

Program SIB-PAIR performs a number of simple analyses of family data that tend to be “nonparametric” or “robust” in nature. The name is a misnomer in that Sib-pair is actually for the analysis of arbitrary pedigrees.

::DEVELOPER

David Duffy

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows /MacOsX /  Linux

:: DOWNLOAD

 Sib-pair

:: MORE INFORMATION