The following projects and publications have utilized FlowKit.
#HISTOGRAM IN FLOWJO 10 MANUAL#
FlowKit: A Python toolkit for integrated manual and automated cytometry analysis workflows. White, S., Quinn, J., Enzor, J., Staats, J., Mosier, S. Read our CONTRIBUTING guidelines Cite FlowKit Want to get involved in the development of FlowKit?
#HISTOGRAM IN FLOWJO 10 SERIES#
The series of Jupyter notebook tutorials can be found in the examples directory of this repository. If you have any questions about FlowKit, find any bugs, or feel something is missing from the tutorials below please submit an issue to the GitHub repository here. The tutorial notebooks in the examples directory are a great place to get started with FlowKit, and are linked below. The FlowKit API documentation is available on ReadTheDocs here. Note: FlowKit and FlowUtils use C extensions for significant performanceĪbove is required for correct Logicle and Hyperlog transformations. Interactive scatter plots of gates with sample eventsįlowKit supports Python version 3.6 or above.Interactive scatter plot matrix of any combination of channels.Interactive scatter plot of two channels.Retrieve gating results as a Pandas DataFrame.Programmatically create gating strategies including polygon, rectangle, range, ellipsoid, quadrant, and boolean gates.Export a Session's sample group analysis as a FlowJo 10 workspace file.Polygon, rectangle, ellipse, and quadrant gates.Linear, logarithmic, bi-exponential, and logicle transforms.Workspace files are currently limited to the following features: Limited support for importing FlowJo 10 workspace files.Export gating strategies as a valid GatingML XML document.Import GatingML XML documents as gating strategies.
#HISTOGRAM IN FLOWJO 10 FULL#
Full support for the GatingML 2.0 specification.Create a compensation matrix from a set of compensation bead files.GatingML 2.0 spectrumMatrix XML element.Compensate events using spillover matrices from:.Read FCS files, supporting FCS versions 2.0, 3.0, and 3.1.Please submit an issue if you find any bugs related to this feature. Support is currently limited to exporting data from a single sample group. Version 0.6 added experimental support for exporting FlowJo 10 workspace files from a Session. FlowKit is an intuitive Python toolkit for flow cytometry analysis and visualization, with full support for the GatingML 2.0 standard and limited support for FlowJo 10 workspace files.