flyqma 0.3

Quantitative mosaic analysis of Drosophila imaginal discs.

Fly-QMA

Fly-QMA is part of the NU FlyEye platform for quantitative analysis of Drosophila imaginal discs. The package enables Quantitative Mosaic Analysis (QMA) - that is, it helps users quantify and analyze expression patterns in mosaic tissues.

Expression patterns are typically identified by comparing the intensities of fluorescent reporters between groups of cells. Fly-QMA uses computer vision to quantify these differences in reporter expression by inferring them from microscope images. The measurements may then used to detect and analyze spatial patterns that might otherwise go unnoticed.

Given confocal microscopy data, Fly-QMA facilitates:

• Segmentation. Detect cell nuclei within an image

• Measurement. Quantify reporter expression levels

• Bleedthrough Control. Correct for fluorescence bleedthrough

• Annotation. Automatically label differing groups of cells

• ROI Definition. Focus on particular regions of interest

• Comparison. Compare expression levels between cells

Please visit the Fly-QMA homepage for tips on getting started.

Installation

Installing Fly-QMA is easy. Set up a working environment running Python 3.6+, then install via pip:

pip install flyqma

Getting Started

See the Fly-QMA tutorial.

Examples

For examples of complete projects utilizing Fly-QMA and the entire NU FlyEye platform, check out:

• Our Fly-QMA manuscript
• Our study of Pnt and Yan expression during retinal patterning in Drosophila.