Overview of the Platform User Interface
Last updated
Was this helpful?
Last updated
Was this helpful?
Before you begin, set up a DNAnexus Platform account here:
There are several ways to interact with the platform. All of these will be covered in future lessons/ courses/ documentation.
We are going to be focused on the user interface (highlighted in green), also known as UI.
First, what is a project?
It is a collaborative workspace
The smallest unit of sharing on the platform
A place to store objects that are made on the platform
Examples of these objects can be files, applets, and workflows
A place to contain details of running jobs/ analyses and their results
The user folder is the storage area for your output files
You can add more folders into your user folder for organization (maybe one for data, each project, etc. This is however you and your organization/ company wants to do this)
Data can be in one of 3 states
Open: initial, empty state, awaits upload
Closing: uploading, not instantaneous
Closed: Finalization completed, available for next steps
When you login, you will see a list of projects that you are a part of.
Navigating to a project
We have prebuilt projects for you
In your project space, select "DNAnexus Academy 101"
Navigate to the users folder and use Add > New Folder
Object Classes include:
Data files
Apps
Workflows
Each object receives their own unique ID
These can be file IDs or job IDs
These NEVER change
The same file can be uploaded multiple times into a project; different objects will be created. The platform DOES NOT overwrite a file. Instead, it creates a new file ID every time you upload it.
Metadata is essential to keep track of these files and their properties.
Metadata keeps your files organized
They can have
Tags: which are words to describe the file format, genome, etc.
Examples: fastq, control, bam, vcf
Properties: are key/ value pairs
Examples: sample_id, value= 001
Go to your project folder and find the file information. Identify the columns for the name, type/ class, and tags
You can do this in the overview of each, without selecting the file:
Or, you can do this by selecting each file individually to see a detailed view:
Now, let's try filtering
In this example, you can filter by Type, Class, and the Tags, for example
Now, let's view where the data operations are:
Archive
Copy
Delete
Download
Copying means from one project to another project
You cannot copy within the same project because of the file ID.
Select "+ New Project"
Give your project a name and following the billing/ region options that are relevant to your company/ organization
In the "more info" section, you can add descriptions and summaries for the project.
Add data to the project by using one of the options in the "Add" button in the project
Project Sharing
Gives access to the project to individual users or groups of users (orgs)
Select share project
Add Users here
You can also remove collaborators from the project under the same share points
You will need to be manually added to a project in order to see it appear in your projects page
There are reference genomes/indices that are built on platform, so you can run jobs and analyses.
This storage is not charged to you
To create a support ticket if there are technical issues:
Go to the Help header (same section where Projects and Tools are) inside the platform
Select "Contact Support"
Fill in the Subject and Message to submit a support ticket.
This information can also be found in the for the Platform
Log into the
The project Access levels are as Viewer, Uploader, Contributor, and Admin. These are outlined in the
