Lab Integrated Data
Open Data Management Platform for Modern Biology
An all-included FAIR research data-management web platform for scientists. Effortlessly keep track of your specimen, samples, protocols, lab inventory, assays, and datasets. Document your processes into the Electronic Lab Notebook and as Workflow runs.
Lab Management
Inventory Management
Track and share your consumables (plasmids, antibodies...) and equipment (microscopes, sequencers...). New inventory types can easily be added and customised.
Protocol Management
Easily create, version and share well-formatted protocols, embedding tables and pictures. Copy-paste from existing Word document also works!
Sample Management
Manage your samples and reflect your experiment design (e.g. parent-child relationships) into a sample lineage graph (unlimited steps); supporting sample branching and merging.
Specimen Management
Manage all your living specimen collections (mouse, flies, patients, cell lines...) that are the origin of your samples.
Biobanking
Track sample and specimen exact storage locations in custom storage places with unlimited nesting (e.g. Freezer > Drawers > Rack > Plate...). Track shipments of your biobank items to collaborators or customers.
Electronic Lab Notebook
Write all your notes into word-like Experiments embedding tables, pictures. Link to Protocols, Samples & inventory items consumed in the Experiment. Easily share your Experiments with your colleagues; and organise them into Projects.
Assay Management
Sequencing
Store & share raw and derived datasets. Connect raw data (e.g. FastQ files) to the assays (run parameters, instruments) and samples used to acquire them. Track datasets lineage and connect final results to raw data (unlimited steps).
Light Microscopy
Out of the box support for image data from light & fluorescent microscopy assay including plate-based screens; describe key metadata for the XYZCT dimensions (unlimited channel number).
Electron Microscopy
Out of the box support for room temperature and cryo- Electron Microscopy i.e. TEM, vEM and Tomography setups. Specific sample type allows for flexible description of e.g. grid preparation, vitrification & FIB milling.
Generic Assays
You are not using sequencing or microscopy? No worries, just use generic assays to store your special assays for which we haven't developed a specific model. Use your own assay types to categorize them, and your own annotations to track key metadata.
Interactive Wizard
Use our flexible and user-friendly data registration wizard to register assay details with generated raw data and originating samples.
Dataset Management
Dataset Management
Store & share raw and derived datasets. Connect raw data (e.g. FastQ files) to the assays (run parameters, instruments) and samples used to acquire them. Track datasets lineage and connect final results to raw data (unlimited steps).
Automated Data Ingestion
Automatically ingest data and metadata (e.g. from core facilities) using our CLI, or create your own client by consuming our API. Data owners are notified by email upon new data registration.
Workflows
Import workflows from Git or define them from scratch using LabID user interface. Track the full provenance of your analysed data by connecting it to the exact versions of workflows and computation parameters used through WorkflowRun.
Share with S3
Share or publish a copy of your data with internal and external collaborators easily by sending it to an S3 bucket in just a few clicks.
Archive & Restore
Send data to cold storage to save on storage costs and restore it to its original location as and when required. Write your own plugin to integrate archiving and restoration operations with your infrastructure.
Data Copy Management
Easily track and manage (e.g., delete) copies of your data stored on different storage volumes (local, S3, archives ...) to optimize your costs and save CO2 emissions.
Availability
Export
Download lab collections as Excel spreadsheets, get a copy of your ELN as a static website when you leave the lab, or publish studies (data and metadata) to public repositories (e.g. ENA) are just few examples.
Open Source
No vendor Lock-In. Join the community and contribute new features to LabID, or fork your own project.
Protected
RFC 3161 compliant timestamping of your ELN protects your discoveries (intellectual property).
Cross-platform
Use your favorite operating system. You only need a recent browser.
Learn
Learn how to use LabID using our extensive online training materials, demo web site and documentation.
Third Party Integrations
Galaxy
Send dataset collections to Galaxy in few clicks, run your favorite Galaxy workflows and store back analysed data. Import Galaxy Workflows and Workflow Invocation into LabID to track full provenance of analysed data down to samples and your ELN notes.
WorkflowHub
Import workflow from WorkflowHub, publish your own workflows to WorkflowHub.
Libre Office Online
Directly modify any attached office document. No need to download.
CLI
Use the Command Line Interface to easily import and export data & metadata.
API
Integrate your application with the REST API. Here everything is possible.
What LabRise Consulting Can Do for You
Expert services to get LabID working for your lab
Install
Production-grade deployment of LabID for your infrastructure, on-premises or in the cloud
Maintain
Ongoing support, updates, and monitoring to keep your LabID instance running smoothly
Customize
Tailor LabID to your lab's specific workflows, data types, and integration needs
Train
Hands-on training for your team to get the most out of LabID from day one
LabID
Developed by Multimodal Open Data Integration Support at EMBL.
Supported through the Open Science Clusters' Action for Research and Society (OSCARS) European project under grant agreement No 101129751.