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= [[GenoMik]]-[[PortalWiki]] Overview Page =

This is the primary source of documentation for the
[https://www.cebitec.uni-bielefeld.de/groups/brf/software/portal-genomik/ GenoMik-Portal].

In this overview page, you will find the following topics:

* [[#login|Login to the Portal]]
* [[#request|Request Access to the GenoMik-Portal]]
* [[#browsers|Supported Web Browsers]]
* [[#access|Data access]]
* [[#data|Data integrity, data backup and recovery]]
* [[#tools|Information about Tools]]
* [[#contact|Contact]]

The Portal contains datasets and tools for the analysis of sequence collections, microarrays, genomes etc., and it is run by the "Bioinformatics Resource Facility ([http://www.cebitec.uni-bielefeld.de/groups/brf/ BRF])".

Powered by the [http://www.cebitec.uni-bielefeld.de/groups/brf/infrastructure.html CeBiTec_Infrastructure], the [[GenoMik]]-Portal contains more than 500 processors
and several Terabytes of disk space.



The individual software packages contained in the platform have their own documentation

* [http://www.cebitec.uni-bielefeld.de/groups/brf/software/gendb_info/ GenDB] Sequence analysis for larger contigs (GENDB).
* [http://www.cebitec.uni-bielefeld.de/groups/brf/software/sams_info/ SAMS] Sequence analysis for ESTs and shotgun reads.
* [http://www.cebitec.uni-bielefeld.de/groups/brf/software/emma_info/ EMMA] Microarray data storage and analysis.


== Login to the Portal ==
The portal requires a user name and password from every user. The assumption is made that every individual has his/her own private login. If two individuals share one login and use it simultaneously, terrible things will happen to the user settings and data.

Users need to enter user name and password into the login dialog. Since the data is transported via '''https''' all traffic encrypted and thus secure.

'''Browser Certificates'''

Unfortunately not all institutions that issue certificates are pre-configured into all browsers. Therefore please '''accept permanently''' the CeBiTec certificate.
Doing so will only influence your connections to Bielefeld, no other internet connects will be influenced.
After accepting the certificate once, this question should not need to be answered again ([http://www.mozilla.org/projects/security/pki/psm/help_21/using_certs_help.html Technical Information on using Browser certificates])


== Request Access to the [[GenoMik]]-Portal ==

If you are a '''[[GenoMik]] member''', you can request access to the Portal by sending an e-mail to [[MailTo(Alexander DOT Goesmann AT CeBiTec DOT Uni DASH Bielefeld DOT de)]]. After validation the request will be forwarded to the Bioinformatics Platform. You will receive an automatic mail from our General Project Management System (GPMS) containing your login to the [https://www.cebitec.uni-bielefeld.de/groups/brf/software/portal-genomik/ GenoMik-Portal] and password.

Once logged into the Portal, you can request access to any project within [[GenoMik]]. See section "Data Access" below, for details.


== Supported Web Browsers ==
Please note that not all web browsers are supported with the platform. For security reasons we recommend that users use
[http://www.mozilla.org/products/firefox/ Mozilla/Firefox] or
[http://www.mozilla.org/products/mozilla1.x/ Mozilla].

While other browsers might work, we '''can not test''' with every browser to ensure compatibility. We strive to use standard D-HTML to ensure
maximum compatability.


== Data access ==

There are two major kinds of project "accessibility" within [[GenoMik]]:

* "your" projects:
** either you are a project leader and thus have access to your "own" project data,
** or you have already requested access to this project,
** or the project has been made public within the whole [[GenoMik]] community
* "[[GenoMik]]" projects:
** other projects within [[GenoMik]] not yet visible to you, but to which you can request access.

Access to projects is controlled by the project leaders via the GPMS web interface.
All [[GenoMik]] members can request access to these datasets directly to the respective project leader via the Portal.

The General Project Management System ([http://www.cebitec.uni-bielefeld.de/groups/brf/software/gpms/ GPMS]) provides the interface for requesting and granting access to projects.


== Data integrity, data backup and recovery ==
To ensure the existence of the valuable data sets we perform nightly backup of all data on the platform. In the unlikely event of a disasterous system failure
all data can be retrieved from backup tape.


== Information about Tools ==
Some public databases are available for analysis with the Platform tools. In addition, all sequence data sets created within [[GenoMik]] can be analyzed with these tools. In order to avoid redundancies and facilitate maintenance, the Wiki pages for the tools listed below are described within the Marine Genomics (MGE) Wiki tools section.

'''Please note:''' Only those data sets that you have access to will be visible within the tool section.

* [[MGE-PortalWiki/BLAST|BLAST]]
* [[MGE-PortalWiki/EMOWSE|EMOWSE]]


== Contact ==
Please feel free at any time to send us a email to [[MailTo(Alexander DOT Goesmann AT CeBiTec DOT Uni DASH Bielefeld DOT de)]] with questions or suggestions for improvements.

GenoMik-PortalWiki - Revision history

Admin: 1 revision

imported>KoljaHenckel at 09:05, 19 December 2006