Difference between revisions of "DNA Module"
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<div id="wikinote">The main idea of the DNA Module is to connect DNA data to a specimen database via wrappers following the idea and data architecture of [http://www.gbif.org GBIF]. Thereby specimen data will always be up-to-date because you get the data from the original database.</div> | <div id="wikinote">The main idea of the DNA Module is to connect DNA data to a specimen database via wrappers following the idea and data architecture of [http://www.gbif.org GBIF]. Thereby specimen data will always be up-to-date because you get the data from the original database.</div> | ||
To guarantee both the safeguarding and long-term availability of referenced DNA samples these should be deposited in research collections. Corresponding data including voucher/specimen information should to be stored in suitable collections databases. | To guarantee both the safeguarding and long-term availability of referenced DNA samples these should be deposited in research collections. Corresponding data including voucher/specimen information should to be stored in suitable collections databases. | ||
| + | |||
| + | =Demo Version= | ||
| + | The Demo Version of DNA Module can be found here: [http://www.dnabank-network.org/Module/Demo] | ||
| + | '''Login: Guest''' | ||
| + | '''Password: dnaguest2015''' | ||
=What is GBIF?= | =What is GBIF?= | ||
| Line 12: | Line 17: | ||
=Why should I use the DNA Module?= | =Why should I use the DNA Module?= | ||
| − | The Module is suitable for institutions that have or are planning to have a DNA bank. | + | The Module is suitable for institutions that have or are planning to have a DNA and Tissue bank. |
| − | '''It is the only existing open source software for DNA relevant data so far!''' | + | '''It is the only existing stand alone and fully GBIF and GGBN-compliant open source software for DNA relevant data so far!''' |
If your institution doesn't have a specimen database yet the [[Specimen Tool]] which is part of the DNA Module might be suitable for you as well. | If your institution doesn't have a specimen database yet the [[Specimen Tool]] which is part of the DNA Module might be suitable for you as well. | ||
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The Module offers several tools for data administration. | The Module offers several tools for data administration. | ||
* [[Input DNA Data]] | * [[Input DNA Data]] | ||
| − | * Any GBIF compliant specimen database worldwide can be accessed by the DNA Module | + | * Any GBIF compliant specimen database worldwide can be [http://wiki.bgbm.org/dnabankwiki/index.php/Input_DNA_Data#Defining_reference_to_Specimen_data accessed by the DNA Module] |
* [[Search/Edit]] DNA data | * [[Search/Edit]] DNA data | ||
| − | * Links to GenBank and BOLD entries | + | * [http://wiki.bgbm.org/dnabankwiki/index.php/Input_DNA_Data#DNA_Details Links to GenBank and BOLD entries] |
* Administrate [[Customer Requests]] | * Administrate [[Customer Requests]] | ||
* Add [[Molecular Publications]] to DNA data | * Add [[Molecular Publications]] to DNA data | ||
| − | * [[Specimen Tool]] for DNA voucher data that are not available via GBIF | + | * [[Specimen Tool]] for DNA voucher data that are not available via GBIF or use it as your main specimen administration software |
* [[Configuration Tool]] | * [[Configuration Tool]] | ||
* [[Data Cleaning]] | * [[Data Cleaning]] | ||
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==What are the technical requirements?== | ==What are the technical requirements?== | ||
| − | The Module is | + | The Module is has been tested with PHP7.4 and MySQL6. The database and the scripts has to be installed on a webserver so that more than one people can work with the Module. If only one person will be authorised to work with the Module a local installation is also possible.<br> |
Please contact your local administrator to check these requirements. | Please contact your local administrator to check these requirements. | ||
| − | <div class="wikinote">Please note that it is obligate to install the Module on a webserver if you want to provide your DNA data via the | + | <div class="wikinote">Please note that it is obligate to install the Module on a webserver if you want to provide your DNA data via the GGBN data portal.</div> |
==How can I get it?== | ==How can I get it?== | ||
| − | The sourcecode of DNA Module | + | The sourcecode of DNA Module is available at http://ww2.biocase.org/svn/dnabank/DNA_Module/. It is working, but please get in touch with us before installing it due to recent changes we made that are not in this public repository. Please contact us if you have questions: support@ggbn.org |
| + | |||
| + | ==How to start?== | ||
| + | For setting up the DNA Module you should contact your administrator for help. The Wiki will guide you through following issues: | ||
| + | |||
| + | # [[Installation]] (checking out technical requirements, first steps) | ||
| + | # [[ER diagram]] of Version 2.0 | ||
=Who I may contact for further questions?= | =Who I may contact for further questions?= | ||
| − | Please don't hesitate to | + | Please don't hesitate to contact us if you have any further questions! support@ggbn.org |
---- | ---- | ||
| − | http://www. | + | http://www.ggbn.org GGBN Data Portal<br> |
| − | http://www.gbif.org | + | http://www.gbif.org Global Biodiversity Information Facility (GBIF) |
Latest revision as of 10:32, 5 March 2024
Contents
What is the DNA Module?
The DNA Module is an open source software for DNA data input and management. It was developed within the framework of the DNA Bank Network.
To guarantee both the safeguarding and long-term availability of referenced DNA samples these should be deposited in research collections. Corresponding data including voucher/specimen information should to be stored in suitable collections databases.
Demo Version
The Demo Version of DNA Module can be found here: [1] Login: Guest Password: dnaguest2015
What is GBIF?
The Global Biodiversity Information Facility enables free and open access to biodiversity data online. It is an international government-initiated and funded initiative focused on making biodiversity data available to all and anyone, for scientific research, conservation and sustainable development. GBIF provides an information infrastructure – an Internet-based index of a globally distributed network of interoperable databases that contain primary biodiversity data – information on museum specimens, field observations of plants and animals in nature, and results from experiments – so that data holders across the world can access and share them. [© GBIF] In September 2011 more than 302.000.000 specimen and observation data are available via the GBIF portal.
Why should I use the DNA Module?
The Module is suitable for institutions that have or are planning to have a DNA and Tissue bank.
It is the only existing stand alone and fully GBIF and GGBN-compliant open source software for DNA relevant data so far!
If your institution doesn't have a specimen database yet the Specimen Tool which is part of the DNA Module might be suitable for you as well.
Features
The Module offers several tools for data administration.
- Input DNA Data
- Any GBIF compliant specimen database worldwide can be accessed by the DNA Module
- Search/Edit DNA data
- Links to GenBank and BOLD entries
- Administrate Customer Requests
- Add Molecular Publications to DNA data
- Specimen Tool for DNA voucher data that are not available via GBIF or use it as your main specimen administration software
- Configuration Tool
- Data Cleaning
What are the legal aspects?
The software ist free and open source. By installing and using it you don't enter into a commitment.
What are the technical requirements?
The Module is has been tested with PHP7.4 and MySQL6. The database and the scripts has to be installed on a webserver so that more than one people can work with the Module. If only one person will be authorised to work with the Module a local installation is also possible.
Please contact your local administrator to check these requirements.
How can I get it?
The sourcecode of DNA Module is available at http://ww2.biocase.org/svn/dnabank/DNA_Module/. It is working, but please get in touch with us before installing it due to recent changes we made that are not in this public repository. Please contact us if you have questions: support@ggbn.org
How to start?
For setting up the DNA Module you should contact your administrator for help. The Wiki will guide you through following issues:
- Installation (checking out technical requirements, first steps)
- ER diagram of Version 2.0
Who I may contact for further questions?
Please don't hesitate to contact us if you have any further questions! support@ggbn.org
http://www.ggbn.org GGBN Data Portal
http://www.gbif.org Global Biodiversity Information Facility (GBIF)
