Developer Manual

So you want to use cytoflow in your own Python-based analyses. Great! May I recommend you start with the tutorials and examples – they will give you a feel for the kinds of things you can use cytoflow to do. All of them are generated from Jupyter notebooks, and those notebooks and data can be found in the Releases tab at the project homepage (look for cytoflow-$VERSION-examples-basic.zip and cytoflow-$VERSION-examples-advanced.zip).

Then, if you decide you want to have a go, see the installation notes. Quick hint: if you have Anaconda installed, say:

conda config --add channels cytoflow
conda create --name cytoflow cytoflow

This creates a new Anaconda environment named cytoflow and installs the latest cytoflow package from the Anaconda Cloud.

For more details of these modules, you’re likely to want to see the module documents

Contents:

• Tutorials
  • Basic example cytometry workflow
  • Interactive Plots
  • Machine Learning for Flow Cytometry
  • Statistics in cytoflow
  • Yeast Dosage-Response Curve
• Examples
  • Yeast induction timecourse
  • Kiani et al, Nature Methods 2014
  • TASBE Workflow Example
• How-To Guides for Developers and Contributors
  • HOWTO: Install Cytoflow Modules
  • HOWTO: Spin a new release
  • HOWTO: Use the logicle scale in other matplotlib plots
• Topic Guides
  • Design Guide
  • Writing new cytoflow modules
  • Creating multiple plots
• Frequently Asked Questions
• cytoflow package
  • cytoflow
  • Subpackages
  • Submodules
• cytoflowgui package
  • cytoflowgui
  • Subpackages
  • Submodules

Indices and tables

• Index

• Module Index

• Search Page