BioImage Information Index

Biii is a website for organizing bioimage analysis resources. We manually edit following pages, for you to search tools, workflows and functions for bioimage analysis:

Please enjoy!



Perrine's picture

SOAX

SOAX is an open source software tool to extract the centerlines, junctions and filament lengths of biopolymer networks in 2D and 3D images. It facilitates quantitative, reproducible and objective analysis of the image data. The underlying method of SOAX uses multiple Stretching Open Active Contours (SOACs) that are automatically initialized at image intensity ridges and then stretch along the centerlines of filaments in the network. SOACs can merge, stop at junctions, and reconfigure with others to allow smooth crossing at junctions of filaments.

Perrine's picture

WormGUIDES

WormGUIDES Atlas is an interactive 4D portrayal of neural development in C. elegans. It will ultimately contain nuclear positions for every cell in the embryo, identified and tracked from the 2 cell stage until hatching. Single-cell and subcellular information, including neural outgrowth dynamics for each cell as well as cell function, gene expression, the adult neural connectome and related literature will be collated for each cell from public sources and also integrated with the atlas model.

GiovanniCardone's picture

Image Composite Editor

ICE (Image Composite Editor) is a fast, fully automatic software by Microsoft that can create large montages from overlapping images.

GiovanniCardone's picture

GelBandFitter

GelBandFitter is a user-friendly software specific for analysis of protein gels and estimation of relative protein content.

graemeball's picture

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.

irene's picture

Cellquant

Tags: 
irene's picture

MembraneQuant

Package/Library: 
QuantCenter
irene's picture

HistoQuant

Package/Library: 
QuantCenter
kozubek's picture

Human colon tissue

Biological object: 
in silico colon tissue
Size (MB): 
8 500

Pages

components