Tag: Tiling

FMTP – Fingerprint-based Minimal Tiling Path

FMTP v1

:: DESCRIPTION

FMTP is a software tool to compute the MTP of a physical map based purely on restriction fingerprint data (and the contigs). FMTP completely ignores the ordering of clones obtained by the physical map algorithm.

::DEVELOPER

Bozdag Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 FMTP

:: MORE INFORMATION

Citation

A graph-theoretical approach to the selection of the minimum tiling path from a physical map.
Bozdag S, Close TJ, Lonardi S.
IEEE/ACM Trans Comput Biol Bioinform. 2013 Mar-Apr;10(2):352-60. doi: 10.1109/TCBB

TilingScan – Analyze Tiling Array results online

TilingScan

:: DESCRIPTION

TilingScan is an application for the identification of differentially expressed DNA regions in Tiling Microarray data.

::DEVELOPER

TilingScan team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  •  Web browser

:: DOWNLOAD

TilingScan 

:: MORE INFORMATION

Citation

A web application for the unspecific detection of differentially expressed DNA regions in strand specific expression data.
Juanes JM, Miguel A, Morales LJ, Pérez-Ortín JE, Arnau V.
Bioinformatics. 2015 Jun 2. pii: btv343.

TiMAT 3.4.4 – Process Chip-chip Tiling Array Experiments

TiMAT 3.4.4

:: DESCRIPTION

TiMAT is an open-source, Java based set of scripts used for processing chip-chip tiling array experiments. Its four main functionalities are (1) smooth noisy signals, (2) optionally calculate false discovery rates, (3) identify enriched intervals and (4) identify peaks within these enriched intervals. While parts of TiMAT might be used in analyzing expression arrays, other parts, such as the symmetric null-p calculations are not appropriate for such experiments– TiMAT is designed for chip-chip experiments.

::DEVELOPER

the Berkeley Drosophila Transcription Network Project,

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Java

:: DOWNLOAD

 TiMAT

:: MORE INFORMATION

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