Select Export/Concatenate Populations (or Group), as appropriate, from the drop-down list. Either highlight a Group within the Groups window, or samples within Samples window, then click on the Export /Concatenate action button within the Document band. To concatenate multiple files together, first select the samples or populations you wish to merge. Concatenating (Merging) Data into a new FCS or CSV file.Ĭoncatenate functions can be performed either at the level of a group, or individual samples. Click the Close button to apply.Įxported files can also be read by other applications. The exported files can then be loaded into an existing workspace of your choosing (check Existing Workspace box and click Browse Destination button to select an existing workspace), or opened in a new workspace (check New Workspace box). Once these options are set as you like (the Status section at the bottom of the window tells how many files will be generated), click on the Export button at the bottom right of the dialog box. You can add a Prefix or Suffix to distinguish these files from the originals (export is added as Prefix by default) and even a build a custom file naming scheme using Keywords. Advanced Export Options – File NamingĬlicking on the Advanced Options bar will open additional File Naming options. ParametersĪllows you to choose all compensated parameters, all uncompensated parameters, or a custom set. This is useful if you are working with very large data files and only need to examine a small subset of the events: exporting them to a separate file will usually make analysis faster and more efficient. In the latter case, FlowJo will randomly remove events from the file until the specified event count is reached. Include EventsĪllows you to export all events in the file (Include all), or export a representative subset of the total by specifying a smaller number of events (Include no more than:).
You can also select the Destination folder where the new files will be saved. Basic Export Options – OutputĪllows you to select the file Format (FCS3, CSV-Scale values or CSV-Channel values) from a drop down list.
This will bring up a bring up the following Export or Concatenate window. Select either Export/Concatenate Populations or Export/Concatenate Group, as appropriate, from the drop down list. Next, within the Document band of the workspace ribbon (located by default within the File tab), click on the Data Export/Concatenate action button. To export a particular gated population, highlight the gated subset within a gating tree (either by group or individual samples). To export individual samples within a group, highlight one or more samples in the Samples window (e.g. To export all files within a group, highlight the appropriate group within the Group window. Exporting Data as a new FCS or CSV file.Įxporting can be performed either at the level of a group or individual samples, exporting all events or individual gated populations. To learn about exporting data from the Layout Editor, click here. To learn about exporting data from the Table Editor, click here. To learn about exporting directly from the Graph Window, click here.
To learn about saving Workspace (WSP), Workspace Template (WSPT), Archival Cytometry Standard (ACS), or Excel (XLS) files, click here.
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The following section describes how to export data as FCS or CSV files directly from the workspace using the Export/Concatenate options located within the Document band of actions. For example, you may need to create a new FCS file by merging multiple files together (concatenate) to facilitate rare event analysis, or export CSV files that include your workspace structure (gating tree and columns) for use in a downstream application. Export or Concatenate Sample Data Exporting data from FlowJo is helpful for a variety of tasks.
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