ACT: Artemis Comparison Tool

ACT is a free tool for displaying pairwise comparisons between two or more DNA sequences. It can be used to identify and analyse regions of similarity and difference between genomes and to explore conservation of synteny, in the context of the entire sequences and their annotation.

ACT runs on UNIX, GNU/Linux, Macintosh and MS Windows systems. It can read complete EMBL and GENBANK entries or sequences in FASTA or raw format. Other sequence features can be in EMBL, GENBANK or GFF format.

Links

  • Artemis - a DNA sequence viewer and annotation tool
  • DNAPlotter - makes circular and linear interactive plots
  • BamView - interactive display of read alignments in BAM data files

[Genome Research Limited]

New to ACT?

The ACT manual explains how to install and run ACT and what most parts of the program do.

License

ACT is free software and is distributed under the terms of the GNU General Public License. It should run on any system with a recent version of Java.

Related software

Two separate ACT-related web sites have been developed. WebACT was developed at Imperial College (see Abbott JC et al. 2007). Users can generate comparisons from their sequence files or use a set of pre-computed comparisons. All comparison files can be downloaded for local use or launched in ACT. DoubleACT was developed by Anthony Underwood and Jonathan Green at the Health Protection Agency and allows you to paste or upload sequences to generate ACT comparison files.

Citations

The development of ACT and Artemis is funded by the Wellcome Trust, through its support of the Pathogen Genomics Group. If you wish to acknowledge the use of ACT in a publication, you should cite:

  • ACT: the Artemis Comparison Tool.

    Carver TJ, Rutherford KM, Berriman M, Rajandream MA, Barrell BG and Parkhill J

    Bioinformatics (Oxford, England) 2005;21;16;3422-3

Development

The development version and source code for the latest release of ACT is available:

Java Web Start

FTP download

GIT respository

[1] Note for MacOSX: occasionally a browser decides to display the contents of the .dmg.gz archive file rather than downloading it. If this happens hold down the <control> key and click on the download link. A popup menu should appear, containing several choices. One of the choices should be something like "Save Link As" (or perhaps "Download Link...", "Save Link to Desktop", or a variation on this theme). Select that option, and the archive file should be download correctly.

[2] Note for Windows: you may need to shift-click on this link to download the file. Also please ensure that after downloading this file is called "artemis.jar" with no other hidden extensions. Some windows systems change the name so it looks like a zip file, if this happens then do not unzip it just rename it to "artemis.jar".

Downloads

System Requirements

ACT needs a recent version of Java v1.5 or higher.

For installation instructions please see the ACT manual.

Download ACT

The latest release of ACT is available for Unix, Macintosh and Windows:

Java Web Start

FTP download

Archive and revisions

[3] Note for MacOSX: occasionally a browser decides to display the contents of the .dmg.gz archive file rather than downloading it. If this happens hold down the <control> key and click on the download link. A popup menu should appear, containing several choices. One of the choices should be something like "Save Link As" (or perhaps "Download Link...", "Save Link to Desktop", or a variation on this theme). Select that option, and the archive file should be download correctly.

[4] Note for Windows: you may need to shift-click on this link to download the file. Also please ensure that after downloading this file is called "act.jar" with no other hidden extensions. Some windows systems change the name so it looks like a zip file, if this happens then do not unzip it just rename it to "act.jar".

We welcome contributions to ACT and Artemis and suggestions for new features. An email discussion list is available for this purpose, see the artemis-users information page. Posts to the list since September 2001 are archived at mail-archive.com.

If you have comments about the manual please send them to the ACT/Artemis developers.

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