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A Java application used in whole genome analysis to display SNPs in a genomic context. Supplementary data is downloaded from various public data sources on the fly and saved locally in a cache. Custom data can be added as supplementary tracks.
Avenzoar is a one-year exploration of renal cell carcinoma morphology and its related single nucleotide polymorphisms (SNPa) as a method of automating diagnosis of cancer by using a computer-aided decision tree controlled by analytical statistics.
MIVF - MedicalImaging and Visualization Factory,
is a framework for medical applications. It supplies a platform, in which image processing and 3D visualization algorithms can be employed as reusable components (functional modules or plugins).
JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available.
This project is the development of a Selection Tool primarely used in ImageJ and possibly in GIMP. It is based in LiveWire and SNAKES methods and will firstly be used in IVUS (intravascular ultra sound) images.
Analyze 7.5 (img/hdr) files are used by many medicalimaging packages for data export. This small script converts these Analyze 7.5 image files to comma delimited text files, which are suitable for down stream applications.
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The virtual lab is a NASA-funded project to provide simulated instrumentation. ITG has developed a Virtual Microscope (Virtual SEM and LM) for viewing high-resolution, multi-dimensional image datasets. More info and data: http://virtual.itg.uiuc.edu
InfusionMonitor is a suite to sample, store and view the activity of medical infusion pumps. It currently supports Terumo pumps, and includes a TE-372 pumps simulator to try it out without the need for a real pumps network.
SMIT (Scientific & MedicalImaging Tool) assists in image analysis of 3D datasets. It supports image registration, image segmentation, 3D ROI analysis, and least square fitting. Its powerful OpenGL engine displays your data fast and accurately. Enjoy!
This software system serves as both a DICOM image viewer as well as a diagramming tool for collaborating notes on the given image sets. This my Computer Science graduate thesis project at Loyola Marymount University.
Thea, Tools for High-throughput Experiment Analysis, is an integrated information processing system dedicated to the annotation of data issued from classification systems with biological information coming from a knowledge base.
MicroArray Genome Imaging and Clustering Tool (MAGIC tool) is a platform-independant java program for analyzing MicroArray data (.tiff scans & .txt godlists) via graphs and clustering operations (including QT-clustering). http://www.bio.davidson.edu/magic
Obsolete project - archived at
https://github.com/darrenleeweber/bioelectromagnetism
This is a public release of a Matlab toolbox for working with data from electroencephalography (EEG/ERP) and magnetic resonance imaging (MRI). It contains functions to process and visualize ERP/MRI data and associated electrode positions.
The Java Vision Toolkit (JVT) is a Java Advanced Imaging GUI/library for machine vision and image processing applications. It provides a framework for machine vision and image processing algorithms for 2D and 3D images.
An extensible TIFF codec for Java 1.2 Advanced Imaging, allowing for
extended compression types, writing tiled images etc. Used by GeoTIFF-JAI
project.
The purpose of the project is to develop a quantitative medicalimaging & visualization program for use on brain MR, DTI and MRS data. It is a joint project of the Kennedy Krieger Institute & the Johns Hopkins University, Psychiatric Neuroimaging Lab
jlpv is a Java Light PACS Viewer application useful for review series or images from DICOM data retrieved from the DCM4CHEE PACS system. It also uses ImageJ as a rendering engine or viewer. This project is in a early stage.
The Integrative Biology VRE is a web-based graphical user interface and repository that provides an environment where biological simulation experiments can be constructed without the need for any knowledge of unix, cluster computing, or shell scripting.