BZScan

BZScan is a free java tool for automatic quantification of DNA microarrays with radioactive labeling. BZScan provides saturation, overshining, and background noise correction, it also gives quality control measures. It can work either in a fully automatic "batch mode" or at different levels of manual operation. Version 2 have been completly rebuilt (French only, English coming soon)

Requirements

To run BZScan , you need at least 256Mb of RAM and a 2GHz processor. You need to have at least Java 1.4.1 for BZScan Version 1 and Java 1.5.0 for BZScan Version 2. If you haven't any Java you can download it here(See the link Download Java SE(J2SE) ). BZScan has been sucessfully tested on Linux 2.4, Windows 2000/XP and MacOs X.

Java Web Start(automatic download)

Click here for BZScan1. Click here for BZScan2.

Usual Download

If you prefer a more traditional local installation, you can download the necessary files: Compiled jar file version 1 Compiled jar file version 2 Ftp site all versions Source code all versions (under X11 licence) Use on of the command lines java -Xmx200m -jar BZScan.jar (for version 1) java -Xmx200m -jar BZScan2S.jar (for version 2) This allocates 200MB for running BZScan . Give a higher number if your computer has more memory resources.

Paper

There is a paper explaining how BZScan works: Lopez F, Rougemont J, Loriod B, Bourgeois A, Loi L, Bertucci F, Hingamp P, Houlgatte R, Granjeaud S. Feature extraction and signal processing for nylon DNA microarrays. BMC Genomics. 2004 Jun 29;5(1):38.

Manuals

First-time user's manual(Version 1) Technical notes

Screenshots and examples

BZScan Version 1 in action Results on various types of arrays

Financial Support

This software project was funded in part by the European Commission, contract-no. QLRI-CT-2001-00015 (TEMBLOR) under the RTD programme "Quality of Life and Management of Living Resources"