AnnoTALE

Transcription activator-like effectors (TALEs) are virulence factors of plant-pathogenic Xanthomonas spp. that function as gene activators inside plant host cells.

AnnoTALE is a suite of applications for identifying and analysing TALEs in Xanthomonas genomes, for clustering TALEs into classes by their RVD sequences, for assigning novel TALEs to existing classes, for proposing TALE names using a unified nomenclature, and for predicting targets of individual TALEs and TALE classes.

AnnoTALE is available as a JavaFX-based stand-alone application with graphical user interface for interactive analysis sessions. In addition, we provide a command line application that may be integrated into other pipelines. Both use identical code for the actual analysis, ensuring consistent results between both versions.

AnnoTALE with GUI

AnnoTALE is based on the very recent implementation of JavaFX in Java 8.

We provide AnnoTALE as a runnable JAR file for those with a current version of Java 8 (at least update 45) on their machine.

For user's convenience, we also provide pre-packaged versions of AnnoTALE, which also include Java in the required version, for Mac OS X and Windows. Each of these versions is available two version with different memory requirements (2GB and 6GB). As long as the main memory (RAM) of your machine is sufficient, we recommend to use the 6GB version of AnnoTALE.

Download

• Runnable Jar (requires Java 8, update 45 or greater)
• Mac-DMG of AnnoTALE including Java: 2GB version, 6GB version
• Windows installer of AnnoTALE including Java: 1GB version, 2GB version, 6GB version

AnnoTALE command line application

The AnnoTALE command line application is available as a runnable Jar. For running the program and a quick help, type

java -jar AnnoTALEcli.jar

For larger analyes, it might be necessary to increase the memory allocated by the JavaVM using the -Xms and -Xmx parameters, for instance

java -Xms512M -Xmx6G -jar AnnoTALEcli.jar