Analysis Software Site License
Two site licenses are available. Select one to learn more about available license types and installation instructions:
FCS Express
Available: FCS Express Flow Cytometry (now includes FCS Express Image)
Familiar interface that facilitates presentation of the data
Allow for analysis on a variety of data files including the flow .fcs format, but also data form CellProfiler and Image J, and a long list of proprietary formats from manufacturers including the Image Stream .daf files.
Spreadsheet feature that can incorporate graphs values that updates automatically when the gates are modified
Wide range of analysis tool available, including modelization, unsupervised clustering, R scripts
FCS Express Installation
You will first need an account on the DeNovo Software website.
- Register here for the FCS Express 7 Flow Cytometry license
Download the software and install – choose ‘Stand Alone’ when prompted.
Run FCS Express 7. Follow the steps in the configuration file wizard.
- Choose the 1st option for “Automatically through this wizard, I already have a De Novo Software account”.
- Enter your De Novo Software Account credentials.
- Choose configuration file for your Flow Cytometry site license.
- Complete the wizard and FCS Express 7 will launch.
FCS Express Tutorials
All content here belongs to DeNovo Software
Get help by emailing Technical Support
Get your account on the DeNovo Software website and to access the training material
FlowJo
FlowJo is the most popular flow cytometry analysis software. The unique interface has a bit of a learning curve, but is a favorite with advanced users who like to perform complex and in-depth analyses. A wide range of analysis tools are available, including clustering, visualization, dimensionality reduction. Plots and statistics can be generated in the application, as well as easily exported to your graphing and figure-creation software of choice.
Personal Seat License
- The account is linked to your own email address
- You’ll be allowed to use FlowJo on up to 4 computers (one at a time)
- Management of these computers is done through the FlowJo portal
Shared Computer License
- The seat is linked to the hardware address of the computer where FlowJo will be used
- Best for computers shared within the same laboratory
SeqGeq Seat License
- scRNA sequencing data analysis software
- Seats for that software needs to be ordered, contact the facility for information
FlowJo Installation
Follow these steps to get started:
- Download/install FlowJo here. (Please note: the portal works with v.10.5 or higher)
- Contact the CAT Facility staff to be added to the site license. Make sure to specify the type of seat you’re looking to purchase and if you are requesting a shared computer seat, be sure the include the computer’s HWA
- Continue installation instructions based on license type:
Personal Seat License
- After your are added to the site license you will receive an invitation email directing you to create your account on the FlowJo Portal
- Open the FlowJo and complete the installation following these instructions.
Shared Computer License
- After the HWA is added to the site license, the shared computer will be ready to use.
- Open the FlowJo and complete the installation following these instructions.
- Every user will still need an account on the FlowJo Portal using their UChicago email address. Register here. The account is free – billing is just linked to the computer.
SeqGeq Seat License
- The scRNA sequencing analysis software is also available through the CAT site license. We can request seats on your behalf which will provide you with a discount starting at 10% (scalable with the number of users on the site license)
FlowJo Tutorials
All content here belongs to FlowJo LLC
OMIQ
Offers all the tools for classic manual gating, but shines when it come to the deep dive analysis of your data.
Data cleaning algorithms, dimensionality reduction, clustering, and more.
Elegant interface that allows you to easily build and edit your analysis pipeline
No installation required
OMIQ site license owned by the CAT Facility are available from the iLab scheduler. Simply log in to iLab, schedule time on the OMIQ schedule. You will receive the log in instructions as you make the reservation.
OMIQ tutorial available here
Site license billing model
Both De Novo software and FlowJo charges the CAT Facility for every active licenses. The CAT Facility then send an invoice to each participating research group in accordance to their participation.
The licenses are invoiced once a year, but charge on a quarterly basis. It is the users responsibility to let the inform the CAT Facility on any affiliation change or when the license needs to be closed.
FCS Express site license
- Every active license is charged in full on the first day of each quarter.
- The site license includes any software updates.
- The same license can be used on an unlimited number of computers.
- DeNovo Software will not charge for licenses unused for during a quarter. After 6 months of inactivity, the license is automatically closed.
FlowJo site license
- Every active license is charged in full on the first day of each quarter.
- The site license includes any software updates.
- Each license is dedicated to a single computer.
- FlowJo will charge for each license regardless of usage. It’s the user’s responsibility to let the CAT Facility know when to close a license.
OMIQ site license
- Require your account on the UoC iLab scheduler
- Book time on the software through the OMIQ schedule, get the access credentials as you book time
- Do not attempt to access the software outside of your reserved time, as you may kick out a user already logged in. Let’s all play nice together.
Other available options
If you do not wish to participate in the site license programs but still require access to an analysis platform, the CAT Facility suggests two options:
- Utilize the analysis stations in the facility
- We otherwise recommend the free analysis platform below
Floreada.io
- Free online analysis platform
- Requires no registration
- Training material available here
Panel Design Site License
The CAT Facility has a license to EasyPanel V2 that is made available at no extra cost to our users. Register to the EasyPanel website using one of your @___.uchicago.edu email address.
EasyPanel v.2
- Automated Panel Design tool that pairs your markers to fluorophores in order to maximize resolution
- The Inventory tool allows your group to create your database of antibodies that can be used by EasyPanel to generate your panel