This topic is under construction for the 24.3 (March 2024) release of LabKey Biologics LIMS. For the previous version of this documentation, click here.
LabKey Biologics: Home Page
The main dashboard on the home page provides quick links into different aspects of the data.
The top header bar is available throughout the application and includes:
- The clickable logo, for returning to this dashboard at any time.
- A main Menu button, giving access to all of your data and activities.
- A set of common resources in the upper right:
On the dashboard, you'll see panels displaying:
- Dashboard Insights: A selectable set of visualizations, defaulting to the Sample Count by Status.
- Sample Types can be selectively excluded from the graphs on this dashboard, as described here.
- Notebooks: See task status, recent notebooks, and link to your Electronic Lab Notebooks dashboard.
- Storage List: At a glance storage details and access to your virtual freezers.
- Jobs List: The home for workflow jobs. If any tasks were assigned to you, they would be shown on Your Job Queue and can be filtered by priority.
Header Menus
The menus in the upper right offer these selections:
In-App Notifications for Background Imports
When assay or sample data import by file or copy/paste is large enough that it will take considerable time to complete, the import will automatically be done in the background. Files larger than 100kb (or a copy/paste of > 1000 rows) will be imported asynchronously. This allows users to continue working within the app while the import completes. To see all such imports currently underway, select
Background Imports from the user/avatar menu.
In the header, the
Notifications menu will report when background imports are completed. While an import is underway, the bell icon will be replaced with a spinner icon. The number superimposed on the menu indicates how many unread notifications are available.
The spinner icon will also be shown to users viewing the Sample Type or Assay currently being imported in the background making it clear that the data is in an incomplete state.
Learn more about asynchronous background imports in the
companion topic for Sample Manager.
Navigation
The main
Menu is available throughout the application and gives you quick access to all aspects of Biologics. It will include the name of the category you are in ("Dashboard" if not one of the specific categories).
Click the menu categories for sub-dashboards, such as for the Registry, Notebooks, or Sample Types. Click individual menu items for that specific category.
The home page for any registry type provides tabs linking to other entity home pages, here viewing "Molecules". Click a different entity type to switch your view. Use the
and icons to scroll if needed.
Bioregistry
The Registry dashboard shows all of the unique Registry Source Types available, such as Molecules, Expression Systems, Cell Lines, etc. Click a name or directly select one from the main menu to learn more or register new entities:
Click
See Entity Relationships to see the various source types and relationships recognized by the registry. Learn more in this topic:
Biologics: Terminology.
Registry Source Details
Each source in the registry has an Overview page which includes basic properties, a grid about any samples created from it, links to any notebooks which reference it, and a list of related registry source entities. The
Manage menu lets you create new sources or samples with the selected registry source as a parent.
Detail pages include multiple tabs for details including Lineage. Some Registry Source Types, including Protein and Nucleotide Sequences, also include a tab for Sequence, shown here.
Sample Types
The Sample Types dashboard shows a grid of sample types defined in the system.
Learn more in the topic:
Biologics: Manage Samples.
Assays
The Assays dashboard shows the assays defined in your system.
Learn more in the topic:
Biologics: Assay Data
Storage
Managing contents of your physical storage systems, such as freezers, is made easier by creating an exact virtual match, giving you an integrated way track where each sample can be found.
Learn more about creating, customizing, and using storage in the Sample Manager documentation here:
Workflow
The Workflow dashboard shows a
Job List of active workflow jobs and tasks in the system.
The tabs each show the count of jobs in the different categories:
- Your Job Queue: Jobs and tasks assigned to you.
- Your Tracked Jobs: Jobs you are on the Notify List for.
- All Active Jobs: Jobs that have not been completed, including but not limited to the ones in your own queue.
- Completed Jobs: Jobs that have been completed.
- All Jobs: All of the above.
Learn more in the topic:
Media (Enterprise Edition Feature)
From the Media dashboard, you add and manage ingredients, raw materials, mixtures, and batches.
Learn more in the topic:
Managing Ingredients and Raw Materials
Picklists
Create and access user-defined picklists, which gather a set together for some operation like adding to a workflow job, adding to storage, performing bulk operations, etc. Editors (and above) can create their own picklists. Access either
Your Picklists or
Shared Picklists from the main menu.
Learn more in this topic:
Notebooks
Collaborate and record your work in data-connected Electronic Lab Notebooks. Use templates to create many similar notebooks, and manage individual notebooks through a review and signing process.
Learn more in this section:
Related Topics
Learn more about each aspect of the Biologics LIMS in these detailed topics:
