THE FEATURES
SLIMS achieves its flexibility with fully featured modules that support labs in any domain. We started by creating your on-premise or in the cloud SLIMS instance, then we install the out-of-the-box packages to get the initial setup done quickly. You have the freedom to later customize your digital lab with the modules and user accesses that support your workflow, whether it includes analytical, or diagnostic analyses, massive sample storage and tracking, gene sequencing and equipment integrations, and more.
THE FEATURES
SLIMS achieves its flexibility with fully featured modules that support labs in any domain. We started by creating your on-premise or in the cloud SLIMS instance, then we install the out-of-the-box packages to get the initial setup done quickly. You have the freedom to later customize your digital lab with the modules and user accesses that support your workflow, whether it includes analytical, or diagnostic analyses, massive sample storage and tracking, gene sequencing and equipment integrations, and more.
CDS Integration
Connecting SLIMS with Agilent OpenLab CDS allows chromatography instruments to be synced with SLIMS, the generation of CDS sample sheets in a workflow, and for the results of a chromatograph run to be imported to the result step in a workflow in SLIMS.
Instrument Calibration
The calibration status of instruments can be tracked in SLIMS, with a check that runs nightly to manage expired instruments. This allows preventing a user to use uncalibrated instrument consequences like content flags and warnings if uncalibrated instruments are used in an experiment run.
Analytical Workflow
This type of workflow allows results for specific tests to be required on a sample navigating a workflow, and is just as configurable as standard workflows. Products and Specifications can be used to configure a set of tests to be measure on a product with specific required result ranges.
Library Preparation
NGS plates can be designed easily using drag and drop functionality. Samples can be selected in batch and moved to appropriate positions in the plate, filled either by rows or by columns.
Pooling and Mixing
Pools or mixes of samples or pools of sample libraries can be created in SLIMS. Once a pool or mix is created, the list of samples included in a pool can be displayed and reviewed.
Workflows
The SLIMS platform offers a complete workflow solution easily integrating with protocols and external analysis solutions.
SLIMS APIs and Plugins
The SLIMS platform provides several APIs to build custom SLIMS plugins and extend the core functionalities of the system by integrating with external equipment or for customizing complex workflows. Web-based applications with custom interfaces like portals for your external customers can be built using our Python API or the flexible Vaadin API.
- SLIMS GATE, our main Java-based API
- Vaadin, a Java-based highly flexible toolkit for web development
- REST
- Python
Sample Management
If you want to streamline the management of sample repositories and associated data, SLIMS can help you do it. With the sample management module you are able to manage the logistics of your lab.
Galaxy Integration
The Galaxy Platform is fully integrated with SLIMS. Feel free to design your custom workflows on Galaxy and use them directly within the SLIMS workflow module. Import and export data and files with Galaxy to retrieve the results and store everything in SLIMS. No need to manually download your files between different analysis platforms. Everything is managed by SLIMS!
Electronic signature
SLIMS supports electronic signatures on orders and results, and allows you to sign-off in experiment. Electronic signatures are recorded in the audit-trail and can be used in regulated environments.
Excel Import/Export
Easily Import and Export data in SLIMS with Excel. With SLIMS you can export all the relevant information you need to excel.
Permissions Management
Permissions in SLIMS can be configured in all details needed by your internal organization. Access to samples and experiments can be granted to single users or group of users working on the same project.
Barcodes and Labels printers
SLIMS contains a tool to design your own labels which will contain the barcodes for your samples or any other item. Multiple features in SLIMS allows to directly scan a barcode to register a sample or to reduce the manual interaction with SLIMS. SLIMS supports:
- Zebra Label Printers,
- Brady Label Printers
- PrintMate AS Cassette Printer
Data Visualization
With the dynamic results in SLIMS you can enter your measure day after day and visualize the result in a graph with a simple click. You can even choose your graph design if you prefer bar graphs over lines and many others including (lines, bars, pies, doughnuts, radars, etc).
Sequencers Integration
SLIMS supports easy sample sheet creation and export, plate design and management of sequencing files from a panel of different sequencers, including MiSeq, HiSeq and others.
Protocols
As part of SOPs, protocols in SLIMS help to organize and define the information recorded during tasks performed in the lab.
Macros
Use macros in SLIMS to automate repetitive tasks. Combine existing basic actions as create, link and derive content, for generic data manipulation.
Custom Fields
With SLIMS you can store all your important metadata using custom fields. Custom fields can be restricted to specific sample types or to give experiment steps for example, according to your customization needs.
Electronic Lab Notebook
The Electronic Lab Notebook (ELN) module of SLIMS enables a digital and interactive note-taking and a step by step follow-up of experiments. He has a full featured rich text editor that provides users with the ability to create and record all type of documentation within the system.
Authentication
SLIMS provides an internal authentication method but can also integrate with the following authentication providers:
- LDAP
- OAuth with Google and Okta
- Agilent OpenLab Shared Services
Balance Integration
SLIMS can integrate with Mettler-Toledo balances, and for instance send a request to a to get weight value results on tests: the user can click the SLIMS GATE button and get the measurement from the balance through a generic SLIMS GATE plugin.
Views
Make it easier for users to find specific records by creating various saved views that filter for record type or status, that make abnormal results pop with custom highlighting, and more, like sorting, filtering, defining the visible columns, and grouping.
Containers
Containers can be managed in SLIMS: you can register an empty container and fill it with a sample later. Containers have a unique identifier, a location, and can have association with a lot number and an expiration date. (examples: Tubes, Vials)
Flags
Flags can be created and assigned to samples moving through a workflow. These are used to make the samples more visible, but also to control the consequences of a flag, like forcing the sample to be requeued or preventing it from moving through particular protocols.
Scheduled Jobs
Build CRON expressions using Apache Quartz syntax to email, notify, and warn users when the value expression is triggered by an event in SLIMS.
Runs in all Browsers
No local installation required, you only need a web browser to run SLIMS. This platform is based on the Google Web Toolkit and is compatible with any browser.
Pedigrees
In the SLIMS platform the pedigree functionality supports the construction of family trees.
Picklists
Create a personalized picklist in SLIMS for any type of sample in your lab.
Cloud-based
SLIMS can be deployed in the cloud for clients who need/prefer the virtual environment. Using Amazon’s ECS technology platform, SLIMS can easily and rapidly deploy into the cloud saving money on physical servers.
HL7
SLIMS can receive and interpret HL7 messages from all those network-connected applications.
Order Management
The SLIMS Order Management module allows you to manage analysis [...]
Notifications
The SLIMS platform offers a custom notification system via app notification, browser notification or email.
R Scripts
With SLIMS you can run your own R script on any contents. You can not only run simple statistics but also create graphs directly from SLIMS.
Drag-and-Drop
You have a result file you need to attach to your experiment? An image to add to your notes? With SLIMS you can simply drag and drop your file from your computer into SLIMS and the attachment is saved in your experiment.
GenePattern Integration
Manage your data analysis pipelines from GenePattern directly within your SLIMS workflow. Import and export data and files with the GenePattern platform to get your analysis results and keep everything in one single place ! SLIMS allows a full sample-to-insight workflow thanks to the external analysis platforms integration.
ABI sequencer
Directly from the SLIMS environment you can do the following:
- Generate input machine file from sequencer
- Pick-up of result files from network disk
- Automatic conversion of ab1 files to readable text files
Agilent 2100 Bioanalyzer
The Agilent 2100 Bioanalyzer system provides sizing, quantitation and quality control of DNA, RNA, proteins and cells on a single platform, providing high quality digital data. A csv file, that is attached to an experiment step, is imported into SLIMS. Results for multiple tests are made and linked to the samples in SLIMS.
CDS Integration
Connecting SLIMS with Agilent OpenLab CDS allows chromatography instruments to be synced with SLIMS, the generation of CDS sample sheets in a workflow, and for the results of a chromatograph run to be imported to the result step in a workflow in SLIMS.
Instrument Calibration
The calibration status of instruments can be tracked in SLIMS, with a check that runs nightly to manage expired instruments. This allows preventing a user to use uncalibrated instrument consequences like content flags and warnings if uncalibrated instruments are used in an experiment run.
Analytical Workflow
This type of workflow allows results for specific tests to be required on a sample navigating a workflow, and is just as configurable as standard workflows. Products and Specifications can be used to configure a set of tests to be measure on a product with specific required result ranges.
Library Preparation
NGS plates can be designed easily using drag and drop functionality. Samples can be selected in batch and moved to appropriate positions in the plate, filled either by rows or by columns.
Pooling and Mixing
Pools or mixes of samples or pools of sample libraries can be created in SLIMS. Once a pool or mix is created, the list of samples included in a pool can be displayed and reviewed.
Workflows
The SLIMS platform offers a complete workflow solution easily integrating with protocols and external analysis solutions.
SLIMS APIs and Plugins
The SLIMS platform provides several APIs to build custom SLIMS plugins and extend the core functionalities of the system by integrating with external equipment or for customizing complex workflows. Web-based applications with custom interfaces like portals for your external customers can be built using our Python API or the flexible Vaadin API.
- SLIMS GATE, our main Java-based API
- Vaadin, a Java-based highly flexible toolkit for web development
- REST
- Python
Sample Management
If you want to streamline the management of sample repositories and associated data, SLIMS can help you do it. With the sample management module you are able to manage the logistics of your lab.
Galaxy Integration
The Galaxy Platform is fully integrated with SLIMS. Feel free to design your custom workflows on Galaxy and use them directly within the SLIMS workflow module. Import and export data and files with Galaxy to retrieve the results and store everything in SLIMS. No need to manually download your files between different analysis platforms. Everything is managed by SLIMS!
Electronic signature
SLIMS supports electronic signatures on orders and results, and allows you to sign-off in experiment. Electronic signatures are recorded in the audit-trail and can be used in regulated environments.
Excel Import/Export
Easily Import and Export data in SLIMS with Excel. With SLIMS you can export all the relevant information you need to excel.
Permissions Management
Permissions in SLIMS can be configured in all details needed by your internal organization. Access to samples and experiments can be granted to single users or group of users working on the same project.
Barcodes and Labels printers
SLIMS contains a tool to design your own labels which will contain the barcodes for your samples or any other item. Multiple features in SLIMS allows to directly scan a barcode to register a sample or to reduce the manual interaction with SLIMS. SLIMS supports:
- Zebra Label Printers,
- Brady Label Printers
- PrintMate AS Cassette Printer
Data Visualization
With the dynamic results in SLIMS you can enter your measure day after day and visualize the result in a graph with a simple click. You can even choose your graph design if you prefer bar graphs over lines and many others including (lines, bars, pies, doughnuts, radars, etc).
Sequencers Integration
SLIMS supports easy sample sheet creation and export, plate design and management of sequencing files from a panel of different sequencers, including MiSeq, HiSeq and others.
Protocols
As part of SOPs, protocols in SLIMS help to organize and define the information recorded during tasks performed in the lab.
Macros
Use macros in SLIMS to automate repetitive tasks. Combine existing basic actions as create, link and derive content, for generic data manipulation.
Custom Fields
With SLIMS you can store all your important metadata using custom fields. Custom fields can be restricted to specific sample types or to give experiment steps for example, according to your customization needs.
Electronic Lab Notebook
The Electronic Lab Notebook (ELN) module of SLIMS enables a digital and interactive note-taking and a step by step follow-up of experiments. He has a full featured rich text editor that provides users with the ability to create and record all type of documentation within the system.
Authentication
SLIMS provides an internal authentication method but can also integrate with the following authentication providers:
- LDAP
- OAuth with Google and Okta
- Agilent OpenLab Shared Services
Balance Integration
SLIMS can integrate with Mettler-Toledo balances, and for instance send a request to a to get weight value results on tests: the user can click the SLIMS GATE button and get the measurement from the balance through a generic SLIMS GATE plugin.
Views
Make it easier for users to find specific records by creating various saved views that filter for record type or status, that make abnormal results pop with custom highlighting, and more, like sorting, filtering, defining the visible columns, and grouping.
Containers
Containers can be managed in SLIMS: you can register an empty container and fill it with a sample later. Containers have a unique identifier, a location, and can have association with a lot number and an expiration date. (examples: Tubes, Vials)
Flags
Flags can be created and assigned to samples moving through a workflow. These are used to make the samples more visible, but also to control the consequences of a flag, like forcing the sample to be requeued or preventing it from moving through particular protocols.
Scheduled Jobs
Build CRON expressions using Apache Quartz syntax to email, notify, and warn users when the value expression is triggered by an event in SLIMS.
Runs in all Browsers
No local installation required, you only need a web browser to run SLIMS. This platform is based on the Google Web Toolkit and is compatible with any browser.
Pedigrees
In the SLIMS platform the pedigree functionality supports the construction of family trees.
Picklists
Create a personalized picklist in SLIMS for any type of sample in your lab.
Cloud-based
SLIMS can be deployed in the cloud for clients who need/prefer the virtual environment. Using Amazon’s ECS technology platform, SLIMS can easily and rapidly deploy into the cloud saving money on physical servers.
HL7
SLIMS can receive and interpret HL7 messages from all those network-connected applications.
Order Management
The SLIMS Order Management module allows you to manage analysis [...]
Notifications
The SLIMS platform offers a custom notification system via app notification, browser notification or email.
R Scripts
With SLIMS you can run your own R script on any contents. You can not only run simple statistics but also create graphs directly from SLIMS.
Drag-and-Drop
You have a result file you need to attach to your experiment? An image to add to your notes? With SLIMS you can simply drag and drop your file from your computer into SLIMS and the attachment is saved in your experiment.
GenePattern Integration
Manage your data analysis pipelines from GenePattern directly within your SLIMS workflow. Import and export data and files with the GenePattern platform to get your analysis results and keep everything in one single place ! SLIMS allows a full sample-to-insight workflow thanks to the external analysis platforms integration.
ABI sequencer
Directly from the SLIMS environment you can do the following:
- Generate input machine file from sequencer
- Pick-up of result files from network disk
- Automatic conversion of ab1 files to readable text files
Agilent 2100 Bioanalyzer
The Agilent 2100 Bioanalyzer system provides sizing, quantitation and quality control of DNA, RNA, proteins and cells on a single platform, providing high quality digital data. A csv file, that is attached to an experiment step, is imported into SLIMS. Results for multiple tests are made and linked to the samples in SLIMS.
Try SLIMS with your lab team!