Getting Started

To get the most out of CellRepo, we recommend creating an account

Sign up for the application by clicking the ‘Join Now’ button on the CellRepo homepage

Choose an avatar (optional), enter your name, email address and a secure password on the form and click the ‘Register’ button

Check your email inbox for an email from CellRepo to confirm your account. Click the link in the email to confirm your email address with CellRepo

You may need to check your spam folder. If you still haven’t received your confirmation instructions after 10 minutes, follow the link for Didn't receive confirmation instructions?

Once you are confirmed, you can sign in using your email address and password

If you have registered, confirmed and signed in successfully, you should see the CellRepo homepage

Here you can set up the species that you base your project from

Click the 'Species' link in the navigation bar at the top of the screen

Select the databank type from the dropdown option

Add in the ID for the species from the external databank source. Click the (?) icon to see the images of how to get the ID and NAME for various external sources

Add in the NAME for the species from the external databank source. Click the (?) icon to see the images of how to get the ID and NAME for various external sources

Click on 'Create' to save your species

Now you’ll see the species under ‘My Species’ list and it will be checked - this means it will appear in the species dropdown on the new project page and edit project page.

Click on the icon next to the species name to get the link out to your species on it's external page

You can also create a new species as part of creating a strain commit

Teams are a way to work with other users on CellRepo

You can define as many teams as you need, and they can consist of one or as many other users as you like

Create a name for your new team

Enter the name of someone you would like to add to the team in the text box on the team page

Click ‘Add’ when you are ready to add that person to your team

Continue this for as many team members as you would like to add

You can remove team members on this page, too, as well as delete the team

When you delete a team, any projects associated with that team become private so that no one apart from you can access that project.

Projects are what contain all of your experiment data.

Each project represents an experiment on a cell line

Browse the different tabs to see different categories of projects

Click the 'Add' button to ceate a new projects

Give your project a name, and optionally add a description

Add a README to tell others how to use or read your project

Capture any data about ethical approval or grant information

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Set the visibility level of your project

Set whether your project will be a strain or plasmid type

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Optionally, you can choose to associate your project with a team. This will NOT work for private projects!

Click the 'Create' button to save your project

Manage your new project using the Actions menu

Forking a project
Forking a project creates a copy of an existing project (belonging to you or someone else) for you to edit and extend
Publishing a project
Publishing a project makes the project public, creates a DOI and finalises all commits on that project Once published, the project can only be forked or deleted

Barcodes are part of commits and are generated to uniquely identify your commits on CellRepo

When creating a new commit, you will see the following

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The top barcode is the unique digital barcode for a commit and is stored on every commit

If you are physically adding a barcode to your strain, check the 'DNA barcode' box to tell CellRepo that you are barcoding this commit

If you want to generate a new DNA barcode, click the 'Generate' button to get a new set of barcodes to use

If you do not want to physically barcode a commit, untick the 'DNA barcode' box. You will still have a digital ID for that commit

Branches contain commits and belong to projects, and represent different versions of work on the same parent project

On the project page, you can see a graph of the commits and branches tree

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Create a new branch by going to a commit, clicking the 'Action' menu and clicking the 'New Branch' option. This will open up a modal with a field where you can enter the name for your new branch and click the button to create the new branch.

The new branch will only show up properly in the graph once you have added a commit to this branch

Switch branches in your project by clicking on the branch name in the branch dropdown

A commit adds the latest changes to the project. It contains information about the changes to the cell line, who did it, references, barcodes, documents etc. Commits are a representation of a cell line at an exact moment in history.

Select 'New Commit' from the Actions menu to add a commit to the project

Fill in the commit form with information about your change. The form will be different depending on whether you have selected 'Strain' or 'Plasmid' project type. Here, we show the 'Strain' option. Add any files you want to upload that supplement the commit. For strain commits, you can enter information about the strain, select or create a new species that will reference it, and set whether you want a to (physically) barcode this strain

You can view your commit once you have added and saved all of your data. The action menu will have the option for you to edit your commit

Click on a document to download that file

A commit, once saved, with remain in its ‘Draft’ state UNTIL you click ‘Finalise Commit’ at which point it can no longer be edited or deleted

Search within CellRepo for things you or other CellRepo users have created

At the moment, we suggest using full terms to search as the application does not currently support partial word or term search
Partial barcode match
The search functionality does support partial barcode matches when searching for full barcodes It has tolerance for around 6BP difference between the barcode in the system and the barcode being entered

Enter your term in the search bar on the navigation menu and click the button to search

Click on a search result to view the resource

You have access to your account settings should you wish to update your name, email address, password, avatar, notification settings, or delete your account

Click on your avatar in the top right corner of the navbar

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Change any fields you wish and click the 'Update' button to save your changes

To delete your account, click the delete button