Welcome to WellReader

What is WellReader?

WellReader is a  MATLAB application developed in  Ibis group (formerly  Helix group) at  INRIA Grenoble - Rhône-Alpes. The software implements computational methods developed for the analysis of the dynamics of gene expression in microorganisms, measured by means of fluorescent and luminescent reporter genes.

As input, WellReader reads the primary data file produced by a 96-well microplate reader, containing the time-series measurements of the absorbance (optical density) levels as well as the fluorescence and luminescence levels in each well (if available).

The main view mimics the microplate, and various modules exist to analyze the data, in particular to detect outliers, correct data by background substraction, smooth the data, compute promoter activities and concentrations, compare expression profiles, etc.

At each step of the analysis, the results of the actions on the data are stored and can be saved and reloaded for further analysis.

In order to understand the function of the WellReader modules, and the way they combine in the analysis of the reporter gene data, have a look at the user guide, and then switch to the modules you are interested in.

User guide and tutorial

Learn how to install and use WellReader with the user guide. We also feature a tutorial to come to grips with the tool.

Download and install

See DownloadAndInstall

Sample data set

See the primary data file and the WellReader file

Contributors

See Contributors

Technical documentation

See TechDoc

Papers

See ReferencePaper

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The development of the software is powered by  trac. This is the software you can use to  report bugs, while developers may edit the documentation wiki, browse source and view diffs (example), etc.

• TracGuide -- Built-in Documentation
•  The Trac project -- Trac Open Source Project
•  Trac FAQ -- Frequently Asked Questions
• TracSupport -- Trac Support

For a complete list of local wiki pages, see TitleIndex.