Tilescope 2.0 – Online Analysis Pipeline for High-density Tiling Microarray data

Tilescope 2.0

:: DESCRIPTION

Tilescope is a fully integrated data processing pipeline for analyzing tiling array data. In a completely automated fashion, it will normalize signals between channels and across arrays, combine replicate experiments, score each array element, and identify genomic features.

::DEVELOPER

ZDZ lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux /Windows / MacOsX
Java

:: DOWNLOAD

Tilescope

:: MORE INFORMATION

Citation

Genome Biol. 2007;8(5):R81.
Tilescope: online analysis pipeline for high-density tiling microarray data.
Zhang ZD1, Rozowsky J, Lam HY, Du J, Snyder M, Gerstein M.

BreakPtr 1.0.5 – Discovery of unbalanced Structural Variants with Tiling Microarrays

BreakPtr 1.0.5

:: DESCRIPTION

BreakPtr (abbrev. for Break-Pointer) is a computational approach for segmenting CGH data and analyzing chromosomal DNA sequence. Its Finder predicts breakpoints of large deletions and amplifications. Its Annotator identifies actual dosage ratios.

::DEVELOPER

Korbel Lab

:: SCREENSHOTS

:: REQUIREMENTS

Windows/Linux/MacOsX
Java

:: DOWNLOAD

BreakPtr

:: MORE INFORMATION

Citation

Korbel JO, Urban AE, Grubert F, Du J, Royce TE, Starr P, Zhong, G, Emanuel BS, Weissman SM, Snyder M & Gerstein MB (2007)
Systematic prediction and validation of breakpoints associated with copy-number variants in the human genome,
PNAS June 12, 2007 vol. 104 no. 24 10110-10115

T2 1.3 – Tiling Microarray Analysis Tools

T2 1.3

:: DESCRIPTION

T2 (TiMAT2) contains tools for low and high level genomic tiling microarray analysis using the Affymetrix, NimbleGen, and Agilent platforms. It is designed for processing single and multi chip data sets from ChIP-Chip, RNA difference, and aCGH experiments.

::DEVELOPER

David Nix

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows
Java

:: DOWNLOAD

:: MORE INFORMATION