Search Results for "images"

Reconstruction and Visualization from Multiple Sections (ReViMS), an open-source, user-friendly software for automatically estimating volume and several other features of 3D multicellular aggregates (i.e., cancer spheroid, zebrafish, fruit fly). ReViMS requires a z-stack of 2D binary masks, obtained by segmenting a sequence of fluorescent images acquired by scanning the aggregate along the z axis, using a confocal or a light-sheet fluorescent microscope. It provides a number of tools for: (a) segmenting z-stacks of fluorescence images; (b) reconstructing the 3D surface of the aggregates and estimating several features (including the volume). ReViMS is written in MATLAB (The MathWorks, Inc., Massachusetts, USA). ...

DDMaker perform local density analysis and generates pseudocolor maps of the spatial distribution of imaged cellular structures in 2D images, starting from either RGB color, grey level or binary images. DDMaker local density analysis permit to selectively denoise the signal, visualize and quantify its distribution and threshold the image basing on local density.

SPIW is a MATLAB toolbox, for automated processing of scanning probe microscope images. Tools are applicable to all SPM images, but the main focus is on images with atomic or molecular resolution. SPIW is primarily a MATLAB toolbox with functions designed to be called in a user's own script. SPIW also has a very basic GUI for browsing and exporting images. For information on SPIW's performance see our publication ( http://dx.doi.org/10.1063/1.4827076 ) in the Review of Scientific Instruments. ...

Qi is a collection of MATLAB tools for the quantitative analysis of flow field images. Our Particle Image Velocimetry (PIV) tool, prana, implements a Robust Phase Correlation kernel for PIV analysis, and now includes Particle Tracking Velocimetry and sizing tools. Tools for pressure calculation, proper orthogonal decomposition (POD), and 3d imaging are under development.

Root Estimator for Shovelomics Traits (REST) is a software developed for an automated or semi automated high-throughput analysis of root system traits form high quality RGB pictures. Standardized image acquisition is strongly recommended and briefly described in the manual which you can get here for free http://plantscience.psu.edu/research/labs/roots/publications/overviews/next-generation-shovelomics-set-up-a-tent-and-rest

...Source code is also available for download. To cite this software: "GoIFISH: A system for the quantification of single cell heterogeneity from IFISH images" Trinh A, Rye IH, Almendro V, Helland A, Russness HG, Markowetz F May 2014

A Matlab based project for tracking cell nuclei in 3D space over time from live imaging data. (Sample images and lineage data are available under "Files".)

...Work is in progress to provide three-channel functionality, allowing comparison of relative intensity of red, green, and blue channels in multi-color images.

Malimpa stands for MAtlab Library for IMage Processing and Analysis. It provides functions for 2D/3D grascale/color image creation, filtering, or measurement. It requires, and complements Matlab Image Processing Toolbox. Important notice: the project is now hosted in GitHub, https://github.com/dlegland/matImage

This is the prototype version of software for robust detecting and segmentation of cell nuclei in 3D fluorescence labeled microscopy images. First release coming soon...

The flNeuronTool allows users to reconstruct and proofread neuronal morphologies in light microscopy images. The system incorporates automatic tracing and manual editing of neuron reconstruction into a cooperative 3D interactive visualization-assisted environment, which is a powerful tool for analysis of complex neuronal images.

Human Machine integration for vessel segmentation has as main objective finding precise methods for the segmentation of blood vessels in retinal images, with the main goal of improving screening and diagnosis procedures.

MATLAB GUI and code to map cell distribution around smooth spherical microcarriers beads from laser scanning confocal microscope images

MATLAB tools to create overlay images from NIfTI or ANALYZE files (neuroimaging format) and convert them to DICOM for use in the clinical environment. Allows radiologists and neurosurgeons easy access to fMRI data. http://paradime.net/research/