Tag: Copy Number

DiNAMIC – Identify recurrent DNA copy number Aberrations in Tumors

DiNAMIC

:: DESCRIPTION

DiNAMIC (Discovering Copy Number Aberrations Manifested In Cancer) is a novel method for assessing the statistical significance of recurrent copy number aberrations. In contrast to competing procedures, the testing procedure underlying DiNAMIC is carefully motivated, and employs a novel cyclic permutation scheme. Extensive simulation studies show that DiNAMIC controls false positive discoveries in a variety of realistic scenarios.

::DEVELOPER

V. Walter, A.B. Nobel, and F.A. Wright

:: SCREENSHOTS

N/A

::REQUIREMENTS

:: DOWNLOAD

 DiNAMIC

:: MORE INFORMATION

Citation

V. Walter, A.B. Nobel, and F.A. Wright
DiNAMIC: a method to identify recurrent DNA copy number aberrations in tumors
Bioinformatics (2011) 27 (5): 678-685.

CopyMap 0.813 – Localization of Copy Number Variation

CopyMap 0.813

:: DESCRIPTION

CopyMap is a hidden Markov algorithm to infer copy number variation from a sample of hybridization intensities. The program combines the information across individuals by estimating a transition matrix between every pair of markers using a Baum‐Welch algorithm. The algorithm consists of two steps, the first step estimates the underlying parameters, the second step estimates carrier status in each individual based on the estimated parameters

::DEVELOPER

Sebastian Zöllner @ the Center for Statistical Genetics

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux /  Windows / MacOsX
  • C Complier

:: DOWNLOAD

  CopyMap

:: MORE INFORMATION

Citation

Sebastian Zöllner
CopyMap: localization and calling of copy number variation by joint analysis of hybridization data from multiple individuals.
Bioinformatics (Oxford, England) 2010;26(21):2776-7.