jointSeg 0.7.0- Joint segmentation of multivariate (copy number) signals

jointSeg 0.7.0

:: DESCRIPTION

The jointSeg R package implements functions to quickly segment multivariate signals into piecewise constant profiles. A typical application is the joint segmentation of total DNA copy numbers and allelic ratios obtained from Single Nucleotide Polymorphism (SNP) microarrays in cancer studies.

::DEVELOPER

Laboratoire de Mathématiques et Modélisation d’Évry

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/ MacOsX
  • R package

:: DOWNLOAD

 jointSeg

:: MORE INFORMATION

Citation

Brief Bioinform. 2014 Sep 8. pii: bbu026.
Performance evaluation of DNA copy number segmentation methods.
Pierre-Jean M, Rigaill G, Neuvial P.

MultiMeta 0.1 – Meta-analysis of Multivariate Genome Wide Association Studies

MultiMeta 0.1

:: DESCRIPTION

The R package MultiMeta provides an implementation of the inverse-variance based method for meta-analysis, generalized to an n-dimensional setting.

::DEVELOPER

Dragana Vuckovic <dragana.vuckovic at burlo.trieste.it>

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • R

:: DOWNLOAD

 MultiMeta

:: MORE INFORMATION

Citation:

MultiMeta: an R package for meta-analyzing multi-phenotype genome-wide association studies.
Vuckovic D, Gasparini P, Soranzo N, Iotchkova V.
Bioinformatics. 2015 Apr 22. pii: btv222

JAMP 1.0 – multivariate GWAS Analysis

JAMP 1.0

:: DESCRIPTION

JAMP (Joint Genetic Association of Multiple Phenotypes) uses raw data as input and evaluates the multivariate evidence for association of multiple phenotypes for a SNP. It also provides a family-wise corrected P-value.

::DEVELOPER

CTG (Complex Traits Genetics) Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOSX
  • Python
  • PLINK

:: DOWNLOAD

 JAMP

:: MORE INFORMATION

GALGO 1.0.11 – Multivariate Variable Selection

GALGO 1.0.11

:: DESCRIPTION

GALGO , an R package based on a genetic algorithm variable selection strategy, primarily designed to develop statistical models from large-scale datasets.

::DEVELOPER

Integrative Genomics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOSX
  • R

:: DOWNLOAD

 GALGO

:: MORE INFORMATION

Citation

GALGO: an R package for multivariate variable selection using genetic algorithms.
Trevino V, Falciani F.
Bioinformatics. 2006 May 1;22(9):1154-6.