Download MethMarker

To run MethMarker:

Download MethMarker, install and run it locally on your machine (advantage: software has to be downloaded only once, accelerating start-up).

If you have any trouble, you should first take a glimpse at the list of frequently asked questions (FAQ). If this does not solve your problem, contact us (and remember: the more information on your problem ï¿½ such as screenshots ï¿½ you provide, the more likely we will be able to help you quickly).

Some general rules for using MethMarker

You'll find the legally binding "small print" in the box below, but here's what we regard as the main points:

We did our best to build a good piece of software but we cannot give any guarantee whatsoever.
MethMarker is free for non-commercial use (i.e. use by non-profit organizations on non-profit projects).
Commercial users (companies etc.) can contact us and will receive a time-limited test version of MethMarker.

Prerequisites

MethMarker is Java-based and requires Java 1.5 or higher. If a suitable version of Java is installed, it runs on almost any operating system, including Windows, MacOS, Linux, and Solaris. To make sure that you have a recent version of Java installed, please check the following: Start a command line (Windows: type "cmd" or "command" in the "Start"->"Run" dialog) or a shell and enter "java -version" to find out your Java version. If it's 1.5 or above, everything is fine and you can directly continue. In all other cases, you have to install a recent version of Javaï¿½s runtime first. You can download it freely from http://www.javasoft.com. Usually, the number 1 in the "Popular Downloads" section is the one you need. Install it as described.

Download MethMarker

Download MethMarker

Please fill out the following form and press the "Submit Request" button to download MethMarker. While none of the fields are mandatory, we would like to ask you to enter your name and affiliation in order to help us keep track of who uses MethMarker, which is very important for planning future directions and extensions for MethMarker. Please also provide a valid e-mail address. We will never share your e-mail address with anyone and we will write you no more than one e-mail per year, when really important new functionality is added to MethMarker.

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At the bottom of the form, you can select between a MethMarker installation package that is specifically designed for Microsoft Windows ("MethMarker for Windows") and a version that runs on any operating system ("MethMarker for Java/Linux/MacOS").

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	* To avoid spammers, please retype the character sequence in the left picture
License Agreement	MethMarker End User License Agreement ------------------------------------- This is a legal agreement ("Agreement") between you ("Licensee", either an individual or a single entity) and Max Planck Institut fuer Informatik Stuhlsatzenhausweg 85 66123 Saarbruecken Germany, ("MPII" for short) about using the MethMarker web service ("Software") that provides a tool for computational analysis of genomes and epigenomes. Please read the following Agreement carefully. By using the software or downloading the source code you indicate that you have read and accepted the provisions of the Agreement and that you agree to be bound by all terms and conditions set forth herein. If you do not agree to any of the terms of this Agreement, do not use the Software and destroy any parts or results from the Software in your possession immediately. 1. Copyright MethMarker, including but not limited to the program code, sample programs, any associated files and documentations (the "Software"), is owned by MPII and is protected by copyright laws. 2. License A license for using the MethMarker web service or source code is provided free of charge to researchers working at academic, non-profit organizations on non-commercial projects. Any commercial use of the software is strictly forbidden (please contact MPII for a free, time-limited, commercial test license). 3. Limited Warranty and Liability Access to the software is provided on an “as is” basis, and there are no warranties or conditions with respect to its fitness for purpose, its operational state, character, quality, or freedom from defects, or the non-infringement of rights of third parties. The Licensee acknowledges that Software furnished hereunder is under test. The Licensee is solely responsible for determining the suitability of the Software and accepts full responsibility and risks associated with the use of the Software. In no event will MPII be liable for any damages, including but not limited to any loss of revenue, profit, or data, however caused, directly or indirectly, by the Software or by this Agreement. 4. Maintenance and Support MPII is not obliged to provide maintenance or support to you. Nor do we guarantee availability of the webserver. 5. Distribution No distribution is to be made of the Software by you. 6. Privacy MPII is committed to respecting the privacy and data security of the users of the software. In general, any uploaded data or conducted analyses are exclusively available under the same account data from where they were generated. MPI staff will access and / or view your data only when this is necessary for debugging purposes. However, due to the software being in test state it may happen that private data becomes erroneously accessible to third persons. MPII cannot take responsibility for any damages caused by such an event. 7. Reproduction of Information All information is generated for personal and academic, non-commercial use only and, in this context, may be reproduced, in part or in whole and by any means, without charge or further permission from MPII. However, we stipulate that the software has to be cited appropriately. 8. Termination If the Licensee fails to comply with any term of this Agreement, this Agreement is terminated and the Licensee has no further right to use the Software. On termination, the Licensee shall have no claim on or arising from the Software. The Software and any results generated by it shall be destroyed. 9. Applicable Law and Court of Jurisdiction This Agreement is made and shall be construed in accordance with the laws of Germany. Court of Jurisdiction is Saarbruecken, Germany. 10. Construction Clause If for any reason a court of competent jurisdiction finds any provision of this Agreement, or portion thereof, to be unenforceable, that provision of the Agreement will be enforced to the maximum extent permissible so as to affect the intent of the parties, and the remainder of this Agreement will continue in full force and effect. 11. Entire Agreement This Agreement constitutes the entire agreement between the Licensee and MPII. It replaces all other representations. All modifications or extensions of this Agreement need to be put down in writing.
Software Variant
	I accept the MethMarker End User Licence Agreement. *

Install MethMarker
- Windows: Just double-click on the downloaded executable file. The installer will guide you through the installation process. A start menu entry and/or desktop symbol will be created to start MethMarker.
- Linux and Unix: Unzip the downloaded .tar file. Open a shell, browse to the unzipped folder and type in
  java -jar install_MethMarkerUnix.jar.
  The installer will be started and guide you through a short installation procedure. A start menu entry and/or desktop symbol will be created to start MethMarker.
- MacOS: Unzip the downloaded .tar file. Double-click on the file "install_MethMarkerUnix.jar". The installer will be started and guide you through a short installation procedure. No desktop icon will be created. To start MethMarker, browse to the installed MethMarker folder and double-click on "MethMarker.jar".
Use the demonstration data set
Now it is a good idea to go through the Tutorial yourself, using the provided demonstration data (included in the download). This will not only make sure that everything works as it should, it will also give you the most efficient introduction into how to use MethMarker.