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Name
Journal of Open Research Software
Type
Journal
Items
129 Publications
Compatibility
OpenAIRE 3.0 (OA, funding)
OAI-PMH
http://openresearchsoftware.metajnl.com/index.php/up/oai

 

  • Web Tool for Navigating and Plotting SomaLogic ADAT Files

    SOMAscan™ is a complex proteomic platform created by SomaLogic. Experimental data resulting from the assay is provided by SomaLogic in a proprietary text-based format called ADAT. This manuscript describes a user-friendly point and click open source, platform-independent software tool designed to be used for navigating and plotting data from an ADAT file. This tool was used either alone or in conjunction with other tools as a first pass analysis of the data on several different on-going resea...

    GENESIS – The GENEric SImulation System for Modelling State Transitions

    This software implements a discrete time Markov chain model, used to model transitions between states when the transition probabilities are known a priori. It is highly configurable; the user supplies two text files, a “state transition table” and a “config file”, to the Perl script genesis.pl. Given the content of these files, the script generates a set of C++ classes based on the State design pattern, and a main program, which can then be compiled and run. The C++ code generated is based on...

    OpenOpticalFlow: An Open Source Program for Extraction of Velocity Fields from Flow Visualization Images

    This paper describes OpenOpticalFlow, an open source optical flow program in Matlab for extraction of high-resolution velocity fields from various flow visualization images. This program is a useful tool for researchers to use the optical flow method in various flow measurements. The principles of the optical flow method are concisely described, including the physics-based optical flow equation, the variational solution, and errors. The central part of this paper is the descriptions of the ma...

    Xanthos – A Global Hydrologic Model

    Xanthos is an open-source hydrologic model, written in Python, designed to quantify and analyse global water availability. Xanthos simulates historical and future global water availability on a monthly time step at a spatial resolution of 0.5 geographic degrees. Xanthos was designed to be extensible and used by scientists that study global water supply and work with the Global Change Assessment Model (GCAM). Xanthos uses a user-defined configuration file to specify model inputs, outputs and p...

    The Giles Ecosystem – Storage, Text Extraction, and OCR of Documents

    In the digital humanities, there is a constant need to turn images and PDF files into plain text to apply analyses such as topic modelling, named entity recognition, and other techniques. However, although there exist different solutions to extract text embedded in PDF files or run OCR on images, they typically require additional training (for example, scholars have to learn how to use the command line) or are difficult to automate without programming skills. The Giles Ecosystem is a distribu...
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