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Orthanc aims at providing a simple, yet powerful standalone DICOM server. It is designed to improve the DICOM flows in hospitals and to support research about the automated analysis of medical images. Orthanc can turn any computer running Windows, Linux, FreeBSD or OS X into a DICOM store (in other words, a mini-PACS system). Its architecture is lightweight and standalone, meaning that no complex database administration is required, nor the installation of third-party dependencies. What makes Orthanc unique is the fact that it provides a RESTful API. Thanks to this major feature, it is possible to drive Orthanc from any computer language. The DICOM tags of the stored medical images can be downloaded in the JSON file format. Furthermore, standard PNG images can be generated on-the-fly from the DICOM instances by Orthanc. Orthanc lets its users focus on the content of the DICOM files, hiding the complexity of the DICOM format and of the DICOM protocol.

GTAMS Analyzer is a complete coding and analysis package. It is a "port" of TAMS Analyzer for Macintosh OS X. Note, at some point the two projects will have identical file formats, at which point the initial G (for GNUstep) will be dropped. GTAMS stands for GNUstep Text Analysis Markup System, it is a convention for identifying themes in text. The software offers a wide range of tools for applying themes to texts and identifying patterns of themes within and between texts. LICENSE: GPL2

Gwyddion is a modular SPM (Scanning Probe Microsopy) data visualization and analysis tool written with Gtk+. It can be used for all most frequently used data processing operations including: leveling, false color plotting, shading, filtering, denoising, data editing, integral transforms, grain analysis, profile extraction, fractal analysis, and many more. The program is primarily focused on SPM data analysis (e.g. data obtained from AFM, STM, NSOM, and similar microscopes). However, it can also be used for analysis of SEM (Scanning Electron Microscopy) data or any other 2D data.

h5utils is a set of utilities for visualization and conversion of scientific data in the free, portable HDF5 format. Besides providing a simple tool for batch visualization as PNG images, h5utils also includes programs to convert HDF5 datasets into the formats required by other free visualization software (e.g. plain text, Vis5d, and VTK).

This is a collection of data structures and algorithms useful for building bioinformatics-related tools and utilities. Current list of features includes: a Sequence data type supporting protein and nucleotide sequences and conversion between them. As of version 0.4, different kinds of sequence have different types. Support for quality data, reading and writing Fasta formatted files, reading TwoBit and phd formats, and Roche/454 SFF files. Rudimentary (i.e. unoptimized) support for doing alignments - including dynamic adjustment of scores based on sequence quality. Also Blast output parsing. Partly implemented single linkage clustering, and multiple alignment. Reading Gene Ontology (GO) annotations (GOA) and definitions hierarchy.

ISAAC (Integrated Solution Algorithm for Arbitrary Configurations) is a compressible Euler/Navier-Stokes computational fluid dynamics code. ISAAC includes the capability of calculating the Euler equations for inviscid flow or the Navier-Stokes equations for viscous flows. ISAAC uses a domain decomposition structure to accomodate complex physical configurations. ISAAC can calculate either steady-state or time dependent flow. ISAAC was designed to test turbulence models. Various two equation turbulence models, explicit algebraic Reynolds stress models, and full differential Reynolds stress models are implemented in ISAAC. Several test cases are documented in the User's Guide.

Harminv is a free program (and accompanying library) to solve the problem of harmonic inversion - given a discrete-time, finite-length signal that consists of a sum of finitely-many sinusoids (possibly exponentially decaying) in a given bandwidth, it determines the frequencies, decay constants, amplitudes, and phases of those sinusoids.

HDF4 (originally known as HDF) is file format for storing scientific data and a software library that provides high-level APIs and a low-level data access interface. HDF technologies at present include two data management formats (HDF4 and HDF5) and libraries, a modular data browser/editor, associated tools and utilities, and a conversion library. Both HDF4 and HDF5 were designed to be a general scientific format, adaptable to virtually any scientific or engineering application, and also have been used successfully in non- technical areas. The Open Source format is a key technological foundation for HDF core technologies. It allows users to collaborate with The HDF Group regarding functionality requirements and permits users' experience and knowledge to be incorporated into the HDF product when appropriate. It also permits users and organizations without adequate technology resources to use a sophisticated and robust data management tool for no charge.

HDF5 is a completely new Hierarchical Data Format product consisting of a data format specification and a supporting library implementation. HDF5 is designed to address some of the limitations of the older HDF product and to address current and anticipated requirements of modern systems and applications. HDF5 includes the following improvements: - A new file format designed to address some of the deficiencies of HDF4.x, particularly the need to store larger files and more objects per file. - A simpler, more comprehensive data model that includes only two basic structures: a multidimensional array of record structures, and a grouping structure. - A simpler, better-engineered library and API, with improved support for parallel I/O, threads, and other requirements imposed by modern systems and applications.

JStrack is written by and for people who are in areas that are prone to hits from tropical systems (currently only in the Tropical Atlantic). It's intended to display the NHC/TPC data and give you what you need to make decisions, etc.. It does NOT, nor will it ever, attempt to do any forecasting on its own---I leave that to the gurus at the NHC/TPC.