CytoBee – FCS Data File Management


Learn how to run your FCS Data File Management with CytoBee, with an efficient tag and search system to easily locate your FCS files from VenturiOne.



Welcome to the CytoBee the FCS Data File Management software tutorial.

This tutorial has been made to introduce you to CytoBee, and help you get started using the software.

If you would like a free trial, please go here.

You will also find links to the installation guide and the user guide here under CytoBee.

When you first open the CytoBee software, you will be asked to create a user account.

Selecting no on this dialog will close the software.

When you have selected yes, a new user dialog will show.

The password needs to be six characters as a minimum, and then we need to login using our new credentials.

When opening for the first time, you will be asked if you will accept the End User License Agreement.

Once you have accepted, you can then use the software.

cytobee workspace fcs data file management workspace flow cytometry data analysis

This is the workspace for CytoBee where you will begin to streamline your FCS data file management.

It has a Windows style ribbon for ease of use, and the application is split into four main

  • the file libraries area on the left.
  • the tag search area up at the top
  • the file list area
  • navigation area at the bottom

On the toolbar you use the select folder button to select your source folder, or any folders you need to source for your FCS data file management.

Once the link to the folders have been created, the software will then show all folders and files within the source folders in the new files library ready for looking at.

You can open the folders and see which files are within each one.

If there are any more files that have been added to your source folder while you’ve been working on CytoBee, you can press the check for changes button and any of these new files will be brought into the new files library ready for you.

Highlighting one or more files in the files list will bring up the drop down menu, and here you
can choose to add files to local.

This means that the file links to the source folder location, and any added tags will be stored within the local database.

“Add files to CytoBee-Hive” is an option which will appear if you have connected to CytoBee-Hive, which is an internet-based file storage and workflow solution.

You can also “Add files to CytoCentral” which is the online version of the storage and
workflow solution.

You can only add files to options if you have connected across your accounts.

Here I’m going to add a file to the local library, so now you can actually see that adding this file has also added the folder structure within.

To add or edit a tag, simply highlight the file or files you wish to tag and either right click, and then use either the edit tags option or the tag button on the toolbar.

The tags dialog will show and this contains the keywords from the current file.

To add a tag press the add button, and this will add a row at the bottom of the keyword list where you can manually type into each cell, the first being the name of the tag and the second the value that you want the tag to show.

So I will create a tag called diagnosis and the value I shall use is CLL as an example.

Press the save button and then don’t panic if you don’t see your tag.

We need to customize the columns to show your new tag name and values.

Go to the column headings and right click to select the customized columns.

This will bring up a dialog with the list of keywords present, and you can either scroll down to the new tag or you can use the filter text field to search for your tag name.

Once you have found it select by either double clicking on the name, or by highlighting and pressing the green arrow pointing to the right.

This will move it to the in-use side of the dialog.

The in-use side of the dialog currently shows the displayed headings, and if you need the location to be shown you can also check the checkbox near the bottom of the dialog.

Press the ok button when you are finished, and the columns will update.

Now I am going to add a folder to the local library so we’ve got more files to tag.

You’ll notice that once done, the file will disappear from the new files library and now appear in the local library.

If I highlight more than one file at a time, I can tag those files with the same tag.

I can also add other tags to the files, and this will enable you to really drill down to what you want to find and analyze further should you need to.

I will now set up a few of these different tags and create a week one, week two, and week three, so once this is done we can then search in the tag search area for the diagnosis of CLL and you can see the tagged CLL files are all pulled in together into one list.

If you are wanting to analyze these files further, to export them from the FCS data file management software we can now press the VenturiOne button and it will open the VenturiOne software, if you’ve got it on your local PC, and import the files into a new playlist ready for analysis.

If you don’t have VenturiOne, there is an extra option to export through the export wizard where you can export playlist files.

This is useful for those of you who have VenturiOne on another PC, or use another software to analyse your FCS files.

The tag search area can be used for boolean searching to help you find more specific files.

If I now search for the CLL plus week one, the search will show just the week one files that have been diagnosed with CLL.

You can also use boolean searching to exclude tags too.

For example, if I wanted to look at only week 1 and week 3 patients I could search for CLL minus week 2, and that would display only the week 1 and the week 3 tagged CLL files.

There are some options on the right hand side of the tag search area, which you can also set if you are wanting to look within the current folder, or all subfolders of that currently open folder.

You can also search in all folders within the local files library.

There is a right click function on the library folders which allows you to check for changes, delete folders, or refresh the list

At the bottom of the files libraries area there is a search results list, which is a list of previous searches and if at any point you wish to go back to one of these instead of having to search all over again, you can select the search that you need and the results will be shown.

Within this software, as well as running local FCS data file management, you have the capability of connecting to our internet-based file storage and workflow management software CytoBee Hive and cloud-based CytoCentral.

You can connect by adding the URL and your username and password for that software.

Once connected you can then add files from CytoBee to the selected software either for storage or to be used as part of a workflow.

You can see and read more about the CytoCentral software here.

At the top of the workspace we have a few more menus.

The file menu is where you can exit the software, the edit menu has the options to select all files in the files list, and the my account option is where you would enter your FCS data file management system to connect to either CytoBee Hive or CytoCentral.

The my details tab is where you would go to change your password when needed, and the last option in the edit list is user management.

Since I’m the first person to sign into the software I automatically become an administrator.

Within user management I can add users, reset passwords, and disable or enable users if I need to.

Under the view tab you can change and customize columns, and you can change where the navigation bar appears – either below the tag search area or at the bottom of the workspace.

You can also choose to have the new files library shown or not which is handy if you’ve got large file structures in here, or if you already have added all your files to the local library.

The help tab contains the user guide for the software.

The next option takes you to the license dialog where you can request a new license and you can see the version of CytoBee that you’re using.

The about option will also show you the version that you’re running.

If you’re interested in a free trial of CytoBee to streamline your FCS data file management, please go here.







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