PAN 1.32.0 – Posterior Association Networks

PAN 1.32.0

:: DESCRIPTION

PAN  provides S4 classes and methods for inferring functional gene networks with edges encoding posterior beliefs of gene association types and nodes encoding perturbation effects.

::DEVELOPER

the Markowetz lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • R
  • BioConductor

:: DOWNLOAD

  PAN

:: MORE INFORMATION

Citation

PLoS Comput Biol. 2012;8(6):e1002566. doi: 10.1371/journal.pcbi.1002566. Epub 2012 Jun 28.
Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations.
Wang X1, Castro MA, Mulder KW, Markowetz F.

RootAnnotator 201402 – Computes Root Posterior Probabilities given a sample of Rooted Trees

RootAnnotator 201402

:: DESCRIPTION

RootAnnotator computes root posterior probabilities. For this, it makes use of posterior collections of trees generated under clock models (e.g. .nexus files such as those generated by BEAST or MrBayes), from which branches wearing the root are identified and counted.

::DEVELOPER

RootAnnotator team

: SCREENSHOTS

RootAnnotator

:: REQUIREMENTS

  • Linux/ Windows/ MacOsX
  • Python
  • Java

:: DOWNLOAD

 RootAnnotator

:: MORE INFORMATION

Citation

Clock Rooting Further Demonstrates that Guinea 2014 EBOV is a Member of the Zaïre Lineage.
Calvignac-Spencer S, Schulze JM, Zickmann F, Renard BY.
PLoS Curr. 2014 Jun 16;6.