EMMAWiki/StepbyStep

Step by Step tutorial for complete beginners

• For MGE members
• For GenoMik-Plus members
• For other potential users
• For all users

How to access EMMA for MGE members

• 1) Login to the Portal:
  • If you are a MGE member you should have a login and password for the MGE bioinformatics portal. Your login is usually as follow: Firstname_Surname.
  • Forgot your password? If you have a login to access the MGE bioinformatics portal and have forgotten your password, you can use the following form to submit a password change request.
  • If you don't remember your login, please send a email to mg-bielefeld[at]cebitec.uni-bielefeld.de
• 2) Access to a EMMA project:
  • Once you have logged into the MGE Bioinformatics portal, please check if you can already access a EMMA project by clicking on the link "My Projects" in the Action menu. For more info, have a look at this link.
  • If you don't have access to a EMMA project, either you can have a look at the Demo project or you can request access to a MGE project. The procedure is explained under this MGE wiki link and this GPMS wiki link.
  • Depending on your privileges for the EMMA project(s) you can access, the tasks you can perform inside a EMMA project can be limited. More info can be found under this EMMA guideline Rights and Roles page.
• 3) Use EMMA with your own data:
  • The best is to have your own EMMA project as chief. For that you need to request a New Project inside the MGE Bioinformatics Portal. The procedure is explained under this MGE wiki link.
  • Once you have access to your project, please read the ArrayLIMS and EMMA documentations before to start to use EMMA.
• 4) Contact:
  • Please feel free at any time to send us a email to mg-bielefeld[at]cebitec.uni-bielefeld.de if you have any problems and/or comments.

Step by Step tutorial for all users

• What is an arraylayout and why do we need it? More info under this EMMA guideline Arraylayout Guidelines page.
• What data files are required?
  • if ImaGene, two .txt files, one for each channel;
  • if GenePix, one .gpr file.
• Dual images or single images? one .tiff file or two .tiff files (one for each channel)
• Storage of the hybridization data together with all relevant biological information into our LIMS (Laboratory Information Management System): More info under the ArrayLIMS Guidelines pages.
• Upload and group your hybridized arrays: for that you need to create a new experiment in EMMA. The procedure is explained under this EMMA Guidelines page.