T-ACE 1.9.5 – Transcriptome Analysis and Comparison Explorer

T-ACE 1.9.5

:: DESCRIPTION

T-ACE (ranscriptome Analysis and Comparison Explorer) was developed for the analysis and organization of transcriptome projects but is also helpful for the organization of small sequence datasets e.g. extracts of a large transcriptome databases. T-ACE does not provide an assembly function, thus data gained by NGS projects (e.g. 454, Illumina, SoliD) have to be assembled prior to the upload (e.g. using Newbler, Celera or TGICL). For transcriptome comparisons T-ACE was designed to work with a dataset composed of several transcriptomes of different treatments or tissues, which are assembled into a consensus transcriptome.

::DEVELOPER

Institute for Clinical Molecular Biology

:: SCREENSHOTS

N/A

::REQUIREMENTS

:: DOWNLOAD

  T-ACE

:: MORE INFORMATION

Citation

The Transcriptome Analysis and Comparison Explorer – T-ACE: a platform-independent, graphical tool to process large RNAseq data sets of non-model organisms.
E.E.R. Philipp; L. Kraemer; D. Mountfort; M. Schilhabel; S. Schreiber; P. Rosenstiel
Bioinformatics 2012; doi: 10.1093/bioinformatics/bts056

CPTRA 20090207 – Cross Platform Transcriptome Analysis

CPTRA 20090207

:: DESCRIPTION

The CPTRA package is for analyzing transcriptome sequencing data from different sequencing platforms. It combines advantages of 454, Illumina GAII, or other platforms and can perform sequence tag alignment and annotation, expression quantification tasks.

::DEVELOPER

Joshua Yuan lab

:: SCREENSHOTS

N/a

:: REQUIREMENTS

  • Linux/ Windows/ MacOsX
  • Python

:: DOWNLOAD

 CPTRA

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S16. doi: 10.1186/1471-2105-10-S11-S16.
Novel software package for cross-platform transcriptome analysis (CPTRA).
Zhou X, Su Z, Sammons RD, Peng Y, Tranel PJ, Stewart CN Jr, Yuan JS.