Submitting Assemblies

Note

Files must be uploaded before assemblies can be submitted. See: Uploading Data Files.

Access the Assembly Page

Create a profile [1] following the steps in Tree of Life profile creation. Then, access the Assembly [2] page via any of the following methods:

Using the Component Button

Click assembly-component-button under the Components column for a profile as shown below:

Assembly profile component button

Button to access the Assembly page (highlighted)


Using the Component Icon Navigation Pane

The component icon navigation pane provides a quick access to other components associated with the same profile. It appears on the inner right pane of the screen when you are viewing a component’s page. The icons displayed in the navigation pane correspond to the components associated with the profile.

If you are unsure what each icon represents, you can perform any of the following:

  • Hover over the icon in the component icon navigation pane to see a tooltip with the component’s name

  • Refer to the component button image above

  • Refer to the What are profile components? FAQ

Note

  • The navigation pane will not display the icon associated with the page that is currently being viewed.

  • If a component has subcomponents, a dropdown menu is shown when at least two items are available. However, if you are viewing a subcomponent’s page and only one item remains, that item is displayed directly in the navigation pane.

Assembly profile component icon

Navigation pane showing the Assembly component icon

Submit Assemblies

  1. Click add-assemblies-record-button button to add an assembly as shown below:

    Pointer to 'Add record' button

    Assembly submission: Click the ‘Add record’ button


  2. An Add assembly dialogue is displayed. Provide the details then, click the Submit assembly button.

    Hint

    An asterisk (*) next to a form field label indicates that the field is mandatory.

    Top section of 'Add Assembly' dialogue

    Add Assembly dialogue (top section)


    Upper-middle section of 'Add Assembly' dialogue

    Add Assembly dialogue (upper-middle section)


    Lower-middle section of 'Add Assembly' dialogue

    Add Assembly dialogue (lower-middle section)


    Bottom section of 'Add Assembly' dialogue

    Add Assembly dialogue (bottom section)


  3. The new assembly will be displayed on the Assembly page after a successful submission.

    Assemblies uploaded

    Assembly submission: Page showing uploaded assemblies


  4. Click an assembly record in the data table on the Assembly page. Then, click submit-record-button located at the top-right of the table as shown below.

    Refer to the View Submission Status section and View Accessions section below for more information about the submission.

    Assemblies submit button

    Submitting an assembly by clicking the “Submit” button

View Submission Status

Hint

The Data status & progress legend, located on the right side of the data table, shows the different stages of submission processing. Hover over the info-icon to see description for each status.

For more details, see the How can I check the status of my data submissions? FAQ section.

The submission will be scheduled for processing after the submit-record-button button is clicked. The row of the submitted assembly record will be highlighted in green indicating that the submission has been successful.

If the submission was unsuccessful or has not been assigned any accessions, the table row will be highlighted in red. Its status is indicated in the SUBMISSION ERROR column and the ENA FILE PROCESSING STATUS column displays the status of the data files associated with the submission.

View Accessions

Accessions are unique identifiers assigned to submissions after they have been successfully submitted to public repositories.

The accession columns are:

  • ACCESSION - Displays the accession assigned to assembly submission.

  • STUDY: Displays the ENA Study accession assigned to the project

  • SAMPLE: Displays the ENA biosample accession associated with sample associated with the submitted assembly.

  • RUN_REF: Displays the ENA Run accession assigned to the reads associated with the submitted assembly.

Clicking any accession in the data table will open the corresponding record in the associated repository. You can also find the same record by searching for the accession directly in the repository.

Tip

Alternatively, click the accessions-component-icon icon located in the top-right corner of the data table to navigate to the Accessions page that displays accessions for all submissions.