cell counting

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PopulationProfiler

PopulationProfiler – is light-weight cross-platform open-source tool for data analysis in image-based screening experiments. The main idea is to reduce per-cell measurements to per-well distributions, each represented by a histogram. These can be optionally further reduced to sub-type counts based on gating (setting bin ranges) of known control distributions and local adjustments to histogram shape. Such analysis is necessary in a wide variety of applications, e.g.

david.rousseau's picture

Muscle fiber counting

Workflow Language: 
Python
kota's picture

Analyze Particles

Package/Library: 
Fiji
ImageJ
graemeball's picture

Count Cells Manually

Workflow Language: 
Human Language
kota's picture

Metamorph

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dscho's picture

Imaris

Imaris is a software for data visualization, analysis, segmentation and interpretation of 3D and 4D microscopy images. It performs interactive volume rendering that lets users freely navigate even very large datasets (hundreds of GB). It performs both manual and automated detection and tracking of biological “objects” such as cells, nuclei, vesicles, neurons, and many more. ImarisSpots for example is a tool to detect “spherical objects” and track them in time series. Besides the automated detection it gives the user the ability to manually delete and place new spots in 3D space.

Anonymous's picture

Mahotas / Labeled image manipulation

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