FlowKit

FlowKit enables programmatic analysis of cytometry data by integrating manual and automated workflows and supporting FCS files, FlowJo workspaces, and Gating-ML 2.0 for interoperability.

Key Features:

• Manual and automated workflows: Integrates manual gating with automated analysis workflows for cytometry datasets.
• Gating-ML 2.0 compliance: Implements Gating-ML 2.0 to encode and exchange gating definitions.
• FCS read/write: Reads and writes FCS files for event data and associated metadata.
• FlowJo workspace read/write: Reads and writes FlowJo workspaces to exchange workspace structures and settings.
• Round-tripping with FlowJo: Supports round-tripping to move gating results and annotations back and forth between FlowKit and FlowJo.
• Integration with Single Cell Data Science: Enables use of Single Cell Data Science algorithms and quantitative analysis workflows on cytometry data.
• Reporting and pipeline support: Supports construction of reporting and analysis pipelines that operate on exchanged files and gating definitions.
• Collaborative analysis: Facilitates joint analysis workflows between domain experts and quantitative analysts in cytometry laboratories and core facilities.

Scientific Applications:

• Cytometry data analysis: Analysis and interpretation of cytometry datasets using combined manual and automated approaches.
• Gating validation and interpretation: Validation and interpretation of gating and population definitions using quantitative algorithms.
• Reproducible reporting: Building reproducible reporting and analysis pipelines that incorporate FCS and FlowJo workspace exchange.
• Collaborative workflows: Enabling collaborative analysis between domain experts and quantitative analysts in cytometry laboratories and core facilities.

Methodology:

Reads and writes FCS files and FlowJo workspaces, implements Gating-ML 2.0, and supports round-tripping of gating results between FlowKit and FlowJo.