Omni-stainer user guide
  • ▶️Overview
  • Product Guides
    • 🥳Quick Start: Omni-Stainer™ Bundles
    • 📦Omni-Stainer™ Box Contents
    • 🛍️Additional materials
    • ☑️S12 Assembly and Sample Prep
    • ☑️C12 Assembly and Sample Prep
    • 🥇Sample Mounting Instructions
    • 🧑‍🔬Manual Operation and "Blue Dye Demo" Manual Protocol
    • 🤖Automation (Opentrons OT-2) Setup
      • 📋Omni-Stainer Automation Overview
      • 📥Importing labware definitions
        • 🆕Opentrons App v7 Updated Labware Definitions
      • ⛱️StainWorks
      • 🗺️Labware Layouts
      • Thermal Sheath & Temperature-controlled incubations
    • 💙"Blue Dye Demo" Automated Protocol
    • 💾Software Requirements
  • Protocol Knowledge Base
    • PhenoCycler® (CODEX)
    • Gram Stain
    • IF
    • IHC
    • H&E
    • RNAScope
    • Opal
    • IMC
  • Background Knowledge, LLM semantic training data
    • 🗄️Background info and Lens training docs
      • Importing labware definitions
      • StainWorks software: a centralized app for accessing and configuring protocols
      • Reagent Layout files
      • Running the "Blue Dye Demo" protocol
      • Copy of CODEX (PhenoCyler™)
        • CODEX Reagent Setup
      • Temperature-controlled incubations
      • Page 2
      • ParheliaBio.com content
        • Advanced Tissue Staining Solutions | ParheliaBio
        • Omni-Stainer™ S12 - Automation Bundle
        • Omni-Stainer™ S12 - Manual Operation Bundle
        • Shop
        • Omni-Stainer™ S12 Thermal Sheath
        • Omni-Stainer™ C12 - Automation Bundle
        • Omni-Stainer™ C12 Thermal Sheath
        • Consumables Archives
        • Conditioning Reagent 5ml Bottle
        • Omni-Stainer™ C12 - Manual Operation Bundle
        • S12 Coverpads - 48 Pack
        • C12 Filter Paper
        • Opentrons Robots Archives
        • S12 Filter Paper
        • C12 Support Pad - 48 Pack
        • Opentrons OT-2 Liquid Handling Robot
        • Opentrons Single-Channel Electronic Pipette p20 (GEN2)
        • Opentrons 300 µl Pipette Tip Tip Racks - 9600 tips
        • Greater Tissue Staining Workflow Efficiency. Slide Staining Kits
      • Opentrons setup guides
        • Opentronssetupguides
        • GetstartedImportaprotocol
      • More Parheliabio.com content
        • Howitworks
        • Parhelia Biosciences FAQs
          • Page 1
            • Frequently asked questions parheliabio website
        • ParheliaFrequentlyaskedquestions
        • Parhelia Omni-Stainer FAQ
      • Meet your Parhelia Omnistainer
Powered by GitBook
On this page
  • We suggest starting with the "Blue Dye Demo" Automated Protocol before exploring other protocols. This demo's steps are crafted to generally adapt to various Parhelia protocols. Find the protocol here:
  • Step 1 - Place the Omni-Stainer, reagent reservoirs, pipette tip rack, and antibody plate into the dedicated slots on the deck of the liquid handler.
  • Step 2 - Create a running protocol using the Staining Works Software
  • Step 3 - Start the experiment. Calibration step.
  • Step 4 - Start the experiment. Initiate the protocol run.

Was this helpful?

  1. Product Guides
  2. Automation (Opentrons OT-2) Setup

Omni-Stainer Automation Overview

Roadmap for Getting Set up with the Omni-Stainer in an Opentrons OT-2

PreviousAutomation (Opentrons OT-2) SetupNextImporting labware definitions

Last updated 1 year ago

Was this helpful?

We suggest starting with the "Blue Dye Demo" Automated Protocol before exploring other protocols. This demo's steps are crafted to generally adapt to various Parhelia protocols. Find the protocol here:

Step 1 - Place the Omni-Stainer, reagent reservoirs, pipette tip rack, and antibody plate into the dedicated slots on the deck of the liquid handler.

When inserting the labware (plates, reservoirs, Omni-Stainers) into the slot of the liquid handler deck it is important to ensure the complete in-flush alignment of the labware bottom with the surface of the deck. Lack of such alignment may result in tips bending while hitting the bottom of the labware wells. SBS labware should click in or rest fully in a deck location, a common error is one of the back corners not being fully inserted and level with the rest of the labware.

Step 2 - Create a running protocol using the Staining Works Software

The Python files with staining protocols for an individual experiment can be easily configured using the Staining Works Software. For auditing and accountability we recommend storing the individual day–specific protocols and assigning them a name consisting of the operator name, date, and the purpose of the experiment.

For more information go to our StainWorks documentation page:

You may see a protocol analysis failure in the Opentrons App if the necessary labware definitions have not been uploaded. To learn more see this documentation page:

Step 3 - Start the experiment. Calibration step.

Step 4 - Start the experiment. Initiate the protocol run.

Our engaging virtual demonstration serves as an excellent introductory guide for understanding the steps in operating the Parhelia Bio Omni-Stainer C12 and S12, encompassing both manual and automated usage, along with thermal sheath and thermal modules.

💙"Blue Dye Demo" Automated Protocol
View the virtual demo here!
⛱️StainWorks
📥Importing labware definitions
🤖
📋
This set-up guide is a great reference
questions
Download Opentrons App
Download Parhelia Bio's base OT-2 scripts and labware definitions from GitHub by clicking here
https://github.com/parheliabio/ot2-scripts
Stainworks
Example of staining protocol loaded into Opentrons
Page cover image