17 - 05 - 2010

An updated version of ARMADA v.2.0 is available (2.0.2) in the Downloads section. This version contains updates regarding changes in Affymetrix .CEL file format and very few minor bug fixes.

New software version supporting analysis of Illumina BeadChips will be soon available!

25 - 02 - 2010

IMPORTANT: In an effort to maintain compatibilities for older versions of MATLAB users (older than R2009x), a small number of issues might arise, as Mathworks keeps changing a lot of things. One of these concerns reading Affymetrix .CEL files. For this purpose, ARMADA uses the Affymetrix GDAC libraries which are no longer available with MATLAB R2009x versions as they are integrated within the Bioinformatics Toolbox. Thus, R2009x users should download and install the GDAC libraries from here (we would like to thank Gautam Goel for the feedback).

15 - 01 - 2010

An updated version of ARMADA v.2.0 is available (2.0.1) in the Downloads section. This version contains mostly certain minor bug fixes, such as the following examples:

• Small bug in exporting Time-Course ANOVA results has been fixed.
• Certain sub-menu availabilities after performing specific tasks have been fixed.
• Bug while importing ImaGene data and not excluding ImaGene filtered spots has been fixed.
• Bug while plotting array images or normalized/un-normalized array images introduced in v.2.0 has been fixed.
• More informative messages have been added for some functionalities.

New software version supporting analysis of Illumina BeadChips will be soon available!

27 - 10 - 2009

The manuscript describing ARMADA has been published online in BMC Bioinformatics. If you use ARMADA for your study, please cite the following:

Aristotelis Chatziioannou, Panagiotis Moulos and Fragiskos N Kolisis
Gene ARMADA: an integrated multi-analysis platform for microarray data implemented in MATLAB
BMC Bioinformatics 2009, 10:354

10 - 10 - 2009

Minor bugs concerning data exporting issues and project saving have been fixed. Additionally, a reported compatibility problem with MATLAB R2009 versions concerning the visualization of the experiment tree has been solved. Latest version with bug fixes can be downloaded from the Downloads section.

02 - 10 - 2009

The manuscript presenting ARMADA and its functionalities entitled:
Gene ARMADA: an integrated multi-analysis platform for microarray data implemented in MATLAB
has been accepted for publication in BMC Bioinformatics and will appear online shortly. Information on software citation upon usage will follow shortly.

We would like to thank all the users that have used ARMADA for microarray data analysis so far and provided useful feedback so the software can be improved. We strongly encourage users to report any positive or negative feedback regarding the software (bugs, suggestions for interface improvements etc).

07 - 04 - 2009

A new version of ARMADA is available (v. 2.0) in the Downloads section. For program's documentation as well as video tutorials, please visit the Documentation section. Updated user's guide will be very soon available. The following summarize the additions in the newest version:

• Users can now analyze Affymetrix chips using ARMADA. Background adjustment, normalization and summarization methods are available as well as several quality filters and control plots (array images, array plots, MA plots, boxplots etc.) as in the case of cDNA microarrays.
• Added a project notes module, where users can associate several notes on the analysis, results etc. with an ARMADA project.
• Minor bug fixes.

Only the newest release is available for download through the website. To obtain older versions of the program please send your request to Panagiotis Moulos (pmoulos@eie.gr).

01 - 09 - 2008

A new version of ARMADA is available (v. 1.1) in the Downloads section. For program's documentation as well as video tutorials, please visit the Documentation section. The following summarize the changes in the newest version:

• Users can now import external already processed data directly for clustering or supervised learning training without having to perform statistical selection first.
• Complete dye-swap experiment support, implemented during the normalization procedure, under the Normalization preferences.
• Added single array plots for several image quantitation types (e.g. Channel 1 vs Channel 2 etc.). Data are selectable and exportable as in MA or Volcano plots.
• Added array vs array plots for several measurements (e.g. log₂ ratio, dye quantitation etc.). Data are selectable and exportable as in MA or Volcano plots.
• Several bug fixes.

Only the newest release is available for download through the website. To obtain older versions of the program please send your request to Panagiotis Moulos (pmoulos@eie.gr).

07 - 04 - 2008

We are pleased to release ARMADA v. 1.0. To download it, you should go to the Downloads section. For program's documentation as well as video tutorials, please visit the Documentation section.