Phriction Projects Wikis Bioimaging And Optics Platform Image Processing OMERO EPFL OMERO account creation History Version 5 vs 6
Version 5 vs 6
Version 5 vs 6
Content Changes
Content Changes
= OMERO account creation =
The EPFL OMERO server can be accessed at [[ https://omero.epfl.ch/ | https://omero.epfl.ch/ ]].
(NOTE) As an EPFL member, you can connect to the EPFL OMERO server by hiting the `login` button on the top-right corner, and entering your gaspar credentials. Your OMERO account is automatically created at first connection. {F16653775}
{F16653820}
= OMERO groups and EPFL units =
As soon as your OMERO account is created, you will be affiliated to the OMERO group that correspond to your default EPFL accreditation.
You can find your default accreditation by typing your name at [[ https://people.epfl.ch/ | https://people.epfl.ch/ ]]: The EPFL unit that is displayed on top corresponds to your default accreditation.
In OMERO.web, you can see your groups in the up-left corner of the web interface, next to your name and below the OMERO logo:
{F17940342}
Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] if you do not belong to the right OMERO group (e.g you're in a doctoral school group instead of a lab group).
= Group permissions =
There are four different permission levels in OMERO.
{F17940637}
- **Private**
This group is the most restrictive:
A private Group owner can see and control who the group members are and can view their data.
As a Group member, you will only ever be able to see your own data.
This can be used for general data storage, access and analysis, but has very limited collaboration potential other than for the Group owner to see other group members’ data.
Potential use cases of Private group:
A PI as Group owner and their student, as a Group member, can access the student’s data. A student might use this to store all of their data and from here, the PI and/or student might decide which data could/should be moved into a more collaborative group where additional members would also be able to view the data.
An institutional repository type structure where data are being archived, but not necessarily open for general viewing.
- **Read-only**
This group allows visibility of other users and their data, but minimal ability to annotate their data:
The Group owner can control group members as above and can perform annotations on the other group members data.
Group member can see who other members are and view their data, but cannot annotate another members’ data at all.
(NOTE) Scientists submitting a publication could move data to a read-only group as part of the publication workflow, making them publicly available via a URL for reviewers and readers (see the Help guide for publishing data using OMERO.web).
- **Read-annotate**
This group allows some collaboration on other members’ data for all members:
Group member can view other members, their data and can make annotations on those other members’ data.
Potential use cases of Read-annotate group:
This could be used by a group of scientists working together with data for a publication.
- **Read-write**
This group essentially allows all the group members to behave as if they co-own all the data:
Group member can view, annotate, edit and delete all data; the only restriction is that they cannot move other members’ data into another group.
Potential use cases of Read-write group:
A group of scientists working in a completely collaborative way, trusting every member of the group to have equal rights and access to all the data.
[[ URL | NEXT STEP: Importing Data ]]
= OMERO account creation =
The EPFL OMERO server can be accessed at [[ https://omero.epfl.ch/ | https://omero.epfl.ch/ ]].
(NOTE) As an EPFL member, you can connect to the EPFL OMERO server by hiting the `login` button on the top-right corner, and entering your gaspar credentials. Your OMERO account is automatically created at first connection. {F16653775}
{F16653820}
= OMERO groups and EPFL units =
As soon as your OMERO account is created, you will be affiliated to the OMERO group that correspond to your default EPFL accreditation.
You can find your default accreditation by typing your name at [[ https://people.epfl.ch/ | https://people.epfl.ch/ ]]: The EPFL unit that is displayed on top corresponds to your default accreditation.
In OMERO.web, you can see your groups in the up-left corner of the web interface, next to your name and below the OMERO logo:
{F17940342}
Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] if you do not belong to the right OMERO group (e.g you're in a doctoral school group instead of a lab group).
= Group permissions =
There are four different permission levels in OMERO.
{F17940637}
By default, OMERO groups are private. Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] is you want to change the permission of an OMERO group you belong to.
(NOTE) For PIs: Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] to be the owner of your lab's OMERO group. The group owner has some additional rights within each group compared to a standard group member, including the ability to add other members to the group.
- **Private**
This group is the most restrictive:
A private Group owner can see and control who the group members are and can view their data.
As a Group member, you will only ever be able to see your own data.
(NOTE) This can be used for general data storage, access and analysis, but has very limited collaboration potential other than for the Group owner to see other group members’ data.
- **Read-only**
This group allows visibility of other users and their data, but minimal ability to annotate their data:
The Group owner can control group members as above and can perform annotations on the other group members data.
Group member can see who other members are and view their data, but cannot annotate another members’ data at all.
(NOTE) Scientists submitting a publication could move data to a read-only group as part of the publication workflow, making them publicly available via a URL for reviewers and readers (see the Help guide for [[ https://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/pilote/publish-data/ | publishing data using OMERO.web ]]).
- **Read-annotate**
This group permission allows some collaboration on other members’ data for all members:
Group member can view other members, their data and can make annotations on those other members’ data.
- **Read-write**
This group essentially allows all the group members to behave as if they co-own all the data:
Group member can view, annotate, edit and delete all data; the only restriction is that they cannot move other members’ data into another group.
Potential use cases of Read-write group:
[[ https://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/data-upload/ | NEXT STEP: Importing Data ]]
= OMERO account creation =
The EPFL OMERO server can be accessed at [[ https://omero.epfl.ch/ | https://omero.epfl.ch/ ]].
(NOTE) As an EPFL member, you can connect to the EPFL OMERO server by hiting the `login` button on the top-right corner, and entering your gaspar credentials. Your OMERO account is automatically created at first connection. {F16653775}
{F16653820}
= OMERO groups and EPFL units =
As soon as your OMERO account is created, you will be affiliated to the OMERO group that correspond to your default EPFL accreditation.
You can find your default accreditation by typing your name at [[ https://people.epfl.ch/ | https://people.epfl.ch/ ]]: The EPFL unit that is displayed on top corresponds to your default accreditation.
In OMERO.web, you can see your groups in the up-left corner of the web interface, next to your name and below the OMERO logo:
{F17940342}
Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] if you do not belong to the right OMERO group (e.g you're in a doctoral school group instead of a lab group).
= Group permissions =
There are four different permission levels in OMERO.
{F17940637}
By default, OMERO groups are private. Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] is you want to change the permission of an OMERO group you belong to.
(NOTE) For PIs: Please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]] to be the owner of your lab's OMERO group. The group owner has some additional rights within each group compared to a standard group member, including the ability to add other members to the group.
- **Private**
This group is the most restrictive:
A private Group owner can see and control who the group members are and can view their data.
As a Group member, you will only ever be able to see your own data.
This can be used for general data storage, access and analysis, but has very limited collaboration potential other than for the Group owner to see other group members’ data.
Potential use cases of Private group:
A PI as Group owner and their student, as a Group member, can access the student’s data. A student might use this to store all of their data and from her(NOTE) This can be used for general data storage, the PI and/or student might decide which data could/should be moved into a more collaborative group where additional members would also be able to view the data.
An institutional repository type structure where data are being archivedaccess and analysis, but not necessarily opehas very limited collaboration potential other than for general viewingthe Group owner to see other group members’ data.
- **Read-only**
This group allows visibility of other users and their data, but minimal ability to annotate their data:
The Group owner can control group members as above and can perform annotations on the other group members data.
Group member can see who other members are and view their data, but cannot annotate another members’ data at all.
(NOTE) Scientists submitting a publication could move data to a read-only group as part of the publication workflow, making them publicly available via a URL for reviewers and readers (see the Help guide for publishing data using OMERO.web[[ https://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/pilote/publish-data/ | publishing data using OMERO.web ]]).
- **Read-annotate**
This group permission allows some collaboration on other members’ data for all members:
Group member can view other members, their data and can make annotations on those other members’ data.
Potential use cases of Read-annotate group:
This could be used by a group of scientists working together with data for a publication.
- **Read-write**
This group essentially allows all the group members to behave as if they co-own all the data:
Group member can view, annotate, edit and delete all data; the only restriction is that they cannot move other members’ data into another group.
Potential use cases of Read-write group:
A group of scientists working in a completely collaborative way, trusting every member of the group to have equal rights and access to all the data.
[[ URLhttps://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/data-upload/ | NEXT STEP: Importing Data ]]
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