MapManDataDownload MapManDataDownload

オプション

MapMan Store

Download Ath_AGI_ISOFORM_MODEL_TAIR10_Aug2012.txt (back)

In order to download the text or xml version of a mapping file you will have to read and agree to the license.

To sign the agreement you will have to register if you haven't already.
Login or Create new account!
License:

Mapping-Files Software License
for non-commercial scientific research purposes

Please read carefully the following terms and conditions and any accompanying documentation before you download, install and/or use the Mapping-Files Software (the "Software"). By downloading, installing and/or using the Software, you acknowledge that you have read these terms and conditions, understand them, and agree to be bound by them. If you do not agree with these terms and conditions, you must not download, install and/or use the Software.

Ownership

The Software has been developed at the Max Planck Institute for Molecular Plant Physiology (hereinafter "MPI") and is owned by and copyrighted proprietary material of the Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. (hereinafter “MPG”; MPI and MPG hereinafter collectively “Max-Planck”).

License Grant

Max-Planck grants you a non-exclusive, non-transferable, free of charge right:
  • To install the Software on computers owned, leased or otherwise controlled by you and/or your organisation;
  • To use and execute the Software for the sole purpose of performing internal non-commercial scientific research.
  • To modify the Software in order to adapt the Software to your IT-infrastructure and/or your scientific needs.

Any other use, in particular any use for commercial purposes, is prohibited. The Software may not be made available in any form to any third party without Max-Planck’s prior written permission.

Grant-back License

If you modify and/or improve the Software in the course of your internal scientific research, you shall inform Max-Planck accordingly, and grant Max-Planck a non-exclusive, worldwide, irrevocable, royalty-free license to any such modifications and improvements. Max-Planck shall be entitled to use such modifications and improvements, and to distribute such modifications and improvements together with the Software and any future updates/upgrades of the Software. Max-Planck will reference your contribution appropriately.

Citation

Publications of work performed using the Software shall properly acknowledge the use of the Software as well as its development by Max-Planck. You shall also clearly identify the Software used by you by naming the Software’s version number. Furthermore, any modifications of the Software made by you shall be precisely specified. This is essential in order to ensure (for Max-Planck and any third parties) comparability of results published by different users.

Disclaimer of Representations and Warranties

You expressly acknowledge and agree that the Software results from basic research, is provided “AS IS”, may contain errors, and that any use of the Software is at your sole risk. MAX-PLANCK MAKES NO REPRESENTATIONS OR WARRANTIES OF ANY KIND CONCERNING THE SOFTWARE, NEITHER EXPRESS NOR IMPLIED, AND THE ABSENCE OF ANY LEGAL OR ACTUAL DEFECTS, WHETHER DISCOVERABLE OR NOT. Specifically, and not to limit the foregoing, Max-Planck makes no representations or warranties (i) regarding the merchantability or fitness for a particular purpose of the Software, (ii) that the use of the Software will not infringe any patents, copyrights or other intellectual property rights of a third party, and (iii) that the use of the Software will not cause any damage of any kind to you or a third party.

Limitation of Liability

Under no circumstances shall Max-Planck be liable for any incidental, special, indirect or consequential damages arising out of or relating to this license, including but not limited to, any lost profits, business interruption, loss of programs or other data, or all other commercial damages or losses, even if advised of the possibility thereof.

No Maintenance Services

You understand and agree that Max-Planck is under no obligation to provide either maintenance services, update services, notices of latent defects, or corrections of defects with regard to the Software. Max-Planck nevertheless reserves the right to update, modify, or discontinue the Software at any time.

Download MapMan

Please evaluate this service! Give your feedback

IF you use X4 annotations please make sure to only use these with pathways staring with the label X4.

You can keep using your installed MapMan version, if you have trouble updating please contact us either on the forum here or  by using mapmanserver--googlemail.com or personally at usadel--bio1.rwth-aachen.de and m.bolger--fz-juelich.de (replace -- by @).

All Mapping Files are now distributed under a CC license (simply cite us) and are available from our github account as well.

 

We have added any land plant and many algae genome support via our Mercator service. If you have a non model species simple visit https://plabipd.de/portal/mercator4 and submit a FASTA file with all protein sequences. You will get a MapMan X4 compliant annotation usually within 30 mins. From within MapMan make sure to download the mapping files starting with X4. This is a silent update ony pertaining to the ontology and maps and was the result of several man years of work. It represents a complete overhaul of the ontology and has resulted in an ontology with about twice as many terms as before offereing a much advanced resolution.

 

If you prefer the old ontology you can use

https://plabipd.de/portal/mercator-sequence-annotation. This is a bit slower and less precise.

Within our de.NBI efforts we will update the ontology for all plants through Mercator approximately every 6 months.

Here are the installables for the most recent version of MapMan.

For more information please refer to the PageMan application page.

If you have questions regarding MapMan don't hesitate to use our forum.

 

   Thanks for working with MapMan, your MapMan Team.

           

 

Version 3.7.0 (05.10.2022)

Version 3.6.0RC1 (19.06.2013 RELEASE CANDIDATE)

  • New detail view on multiple data diagrams (right click, show details, show multiple graphs). Credits go to Elijah Myers of Virginia Tech
  • New type of installers which need Java to be installed
  • The search for publications concerning a given gene has been updated to use NCBI EUtils
  • Small changes to the data filter interface
  • Someusability enhancements
  • See installation instructions 

Version 3.5.1 (19.11.2010) download

  • Small BUGFIX release
  • BUGFIX: alignment options when editing pathways where blocked
  • BUGFIX: VennDIagramm4 misinterpretation of data due to typo
  • SMALL FEATURE: enabled data blocks to be displayed larger
  • SMALL FEATURE: Venn diagramms now have the sets names displayed

Version 3.5.0 (26.05.2010) download

  • PageMan Integration
  • More image exports
  • Easier data export
  • More mouse over informational displays

Version 3.1.1 (4.02.2010) download

  • BUGFIXES: drag n drop of between pathway and cluster fixed
  • ENHANCEMENT: locus 2 publications initialization monitored
  • BUGFIX:interactive popup reshow problems fixed
  • Venn diagram visualization
  • Requests related publications from TAIR' s agi 2 locus service
  • New Interactive mouse overs for ease of use and additional information
  • Java 1.5 compliant for MacOSX users
 
 

Version 3.5.1 (19.11.2010) download

  • Small BUGFIX release
  • BUGFIX: alignment options when editing pathways where blocked
  • BUGFIX: VennDIagramm4 misinterpretation of data due to typo
  • SMALL FEATURE: enabled data blocks to be displayed larger
  • SMALL FEATURE: Venn diagramms now have the sets names displayed

Version 3.5.0 (26.05.2010) download

  • PageMan Integration
  • More image exports
  • Easier data export
  • More Mouse over informational displays

Version 3.1.1 (4.02.2010) download

  • BUGFIXES: drag n drop of between pathway and cluster fixed
  • ENHANCEMENT: locus 2 publications initialization monitored
  • BUGFIX:interactive popup reshow problems fixed
  • Venn diagram visualization
  • Requests related publications from TAIR' s agi 2 locus service
  • New Interactive mouse overs for ease of use and additional information
  • Java 1.5 compliant for MacOSX user

Version 3.1.1 (4.02.2010) download

  • BUGFIXES: drag n drop of between pathway and cluster fixed
  • ENHANCEMENT: locus 2 publications initialization monitored
  • BUGFIX:interactive popup reshow problems fixed
  • Venn diagram visualization
  • Requests related publications from TAIR' s agi 2 locus service
  • New Interactive mouse overs for ease of use and additional information
  • Java 1.5 compliant for MacOSX user

Version 3.1.0 (29.01.2010) download

  • New Features: Venn diagram visualization
  • Requests related publications
  • New Interactive mouse overs for ease of use and additional information
  • Java 1.5 compliant for MacOSX users

Version 3.0.0 (17.06.2009) download

  • New Features: includes mapping multiple data sets onto one pathway
  • New exportable table based displays of mapped data for pathway visualization
  • Many usability enhancements and the usual bug fixes
  • Fixed MS Windows Vista Problems

Version 2.2.0 (08.07.2008) download

  • New Features: includes data mapping onto chromosomal maps
  • New Features: a simplified first user interface
  • revised error messages in the case of user errors
  • fixes the most prominent missing deleted files bug and many others

Version 2.1.1 (12.09.2007) download

  • New Features: includes clustering visualization
  • better integrated proxy support
  • usability enhancements and bug fixes

Version 2.0.0 (23.09.2006)

  • support to filter by derived data, p-values or others
  • new edit mode for annotating pathways (alignment functions, multiple move, ..)
  • multiple links to public databases ( TAIR, GabiD )
  • new export data features
  • TAIR6 support
  • enhanced user interfaces

Version 1.8.1 (23.06.2006)

  • drag, drop and copy for mappings and pathways
  • multiple colour schemes
  • pathway icon preview
  • enhanced user interfaces
  • enhanced data export features

Version 1.8.0 (30.01.2006)

  • Data types can now be represented by different graphical symbols. The "symbols" graphical representation is now default for all which used to be points. If data should be displayed as points only the mode can be overriden from on pathway or on single bin level by switching to the original points interface.
  • Added map after adding or editing annotation areas on the pathway to ensure that previously unknown bins data is mapped.
  • Added last data provider active to allow for new pathways to show the last active data.

Version 1.7.0 (19.12.2005)

  • statistic exportable
  • multiple testing corrections available
  • images can now be exported with given resolution
  • performance enhancements (mappings are now stored in a local database)
  • various bugfixes

Version 1.6.3 (23.09.2005)

  • new pathways and mappings
  • performance enhancements (still ongoing effort)
  • various bugfixes

Version 1.6.0 (08.06.2005)

  • Custom multi format data loading including multi experiment files
  • Color legend
  • Wilcoxon rank sum to rank the bins according to their changes
  • Diverse bugfixes

Version 1.4.3 (01.09.2004)

  • New Feature: with search gene function

Version 1.4.2 (02.06.2004)

  • Integration of MapManStore (up to date Pathways and Mappings can be loaded from remote MapManStore server).
  • Now supports reading of mapping and data files as tab delimited text files.
  • Enhanced Installation routines now checks if software has been updated
  • bugfix: Help window size on MSWindows fixed.
  • bugfix: Error while printing when rescaling image
  • bugfix: Wrong error message displayed when loading double entries in data files
  • Enhanced the image saving routine to autoappend image type extensions if missing

Version 1.4.1 (23.03.2004)

  • New info to clipboard function to copy information from pathway to clipboard.
  • Contains AGI codes in supplied mapping.

Version 1.4.0 (02.03.2004)

  • Major internal revision (essential for new upcoming features), please post bugs on the forum
  • Experiment folders now go into a seperate top level folder.
  • Whole directories can be read as experiments at once.
  • Automatic inclusion of sub bins can be switched off.
  • Visualization mode can be changed for whole pathways to override local settings for single visualization.

Version 1.3.6 (21.01.2004)

  • New Feature: warning appears if installed java version is lower than java 1.4

Version 1.3.5 (21.01.2004)

  • New Feature: keyboard support for moving the annotated dots (klick on the annotated areas, afterwards hold down Alt and press the arrow keys to position)

Version 1.3.4 (01.12.2003)

  • Storing of scaling, datasize and background option individually for each pathway
  • Bug Fix: Display does not update immediately after changing scaling
  • Bug Fix: Popup menus on pathways do not come up correctly if scolling on large images

Version 1.3.3 (26.11.2003)

  • Added dialog if the annotation file cannot be read
  • Added support for opening pathways in the png ang jpg type

Version 1.3.2 (25.11.2003)

  • Storing of scaling, datasize and background option individually for each pathway
  • Bug Fix: Display does not update immediately after changing scaling
  • Bug Fix: Popup menus on pathways do not come up correctly if scolling on large images