Open Source Medical Software
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Medical Software
View 203 business solutionsBrowse free open source Medical software and projects below. Use the toggles on the left to filter open source Medical software by OS, license, language, programming language, and project status.
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dcm4che is an implementation of DICOM and IHE actors in Java. Homepage: http://www.dcm4che.org, Google Group: http://groups.google.com/group/dcm4che?hl=en, Wiki: http://www.dcm4che.org/confluence, Issue Tracking: http://www.dcm4che.org/jira
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Gnaural
Entrain your brain!
A programmable audio generator intended as an aural aid to meditation, implementing the binaural beat principle as described in Gerald Oster's Oct. 1973 Scientific American article "Auditory Beats in the Brain." -
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Brain Workshop
Python implementation of the Dual N-Back mental exercise
Brain Workshop is a Python implementation of the Dual N-Back mental exercise. This exercise is the only mental activity that has been scientifically shown to improve your short-term memory (working memory) and fluid intelligence. -
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OpenMRS
Open source Health IT for the planet
OpenMRS is a community-developed, open source, enterprise electronic medical record system. Our mission is to improve health care delivery in resource-constrained environments by coordinating a global community to creates and support this software. -
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Grassroots DICOM
Cross-platform DICOM implementation
Grassroots DiCoM is a C++ library for DICOM medical files. It is accessible from Python, C#, Java and PHP. It supports RAW, JPEG, JPEG 2000, JPEG-LS, RLE and deflated transfer syntax. It comes with a super fast scanner implementation to quickly scan hundreds of DICOM files. It supports SCU network operations (C-ECHO, C-FIND, C-STORE, C-MOVE). PS 3.3 & 3.6 are distributed as XML files. It also provides PS 3.15 certificates and password based mecanism to anonymize and de-identify DICOM datasets. -
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OpenEMR is an open source medical practice management application (EHR EMR PMS) featuring fully integrated electronic health records, scheduling, electronic billing, internationalization, free support, a vibrant community, and a whole lot more.
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BioSig is a software library for processing of biomedical signals (EEG, ECG, etc.) with Matlab, Octave, C/C++ and Python. About 50 different data formats are supported.
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Amide's a Medical Image Data Examiner: Amide is a tool for viewing, registering, and analyzing anatomical and functional volumetric medical imaging data sets.
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BBMap
BBMap short read aligner, and other bioinformatic tools.
This package includes BBMap, a short read aligner, as well as various other bioinformatic tools. It is written in pure Java, can run on any platform, and has no dependencies other than Java being installed (compiled for Java 6 and higher). All tools are efficient and multithreaded. BBMap: Short read aligner for DNA and RNA-seq data. Capable of handling arbitrarily large genomes with millions of scaffolds. Handles Illumina, PacBio, 454, and other reads; very high sensitivity and tolerant of errors and numerous large indels. Very fast. BBNorm: Kmer-based error-correction and normalization tool. Dedupe: Simplifies assemblies by removing duplicate or contained subsequences that share a target percent identity. Reformat: Reformats reads between fasta/fastq/scarf/fasta+qual/sam, interleaved/paired, and ASCII-33/64, at over 500 MB/s. BBDuk: Filters, trims, or masks reads with kmer matches to an artifact/contaminant file. ...and more! -
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OpenCFU
An application to count bacterial colonies and other circular objects
OpenCFU is a completely open source lightweight application designed to enumerate clustered circular objects such as bacterial colonies. It can handle digital pictures as well as live stream from a video device/webcam. OpenCFU is cross-platform, fast, reliable and allows the user to implement intuitive filters. Additional information is provided on the website: http://opencfu.sourceforge.net/ OpenCFU is published on PLoS ONE: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0054072 -
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C3D is a command-line tool for converting 3D images between common file formats. The tool also includes a growing list of commands for image manipulation, such as thresholding and resampling.
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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.
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radlab
Virtual Radiation Detection and Measurement Laboratory Software
Radiation detection and measurement education is necessary for a wide variety of people working with radiation. The equipment and laboratory setup needed for delivering this education are expensive and difficult to assemble due to the large variety of the type of experiments that are desirable to cover. For a basic education one needs to have gamma, beta, alpha and neutron sources, at least one detector to detect each type of radiation and other supplemental instrumentation to perform experiments. Although the radiation exposure due to these radioactive sources in an education laboratory is low, shielding and a private secured place is needed. Nearly two hundred thousand dollars is needed to construct such a basic laboratory described as above. In order to overcome these difficulties, a model of a basic Radiation Detection Laboratory has been created to provide a virtual environment for designing and simulating such experiments. Team: Dagistan Sahin, Muzaffer Sena Sahin, Korcan Kayrin -
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ATCalc
Programming environment. Scientific and graphic calculator.
From single or scientific calculator to structured programming environment (+- pascal): Input, graphic (display of functions; direct draw; display, capture, etc. of images) functions; tests, ... Ready: visual problems or blind users. See below in the web (http://atcalc.sourceforge.net/) -
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IHC Profiler
A plugin for the quantitative analysis of Immunohistochemistry samples
Identification and scoring of cancer markers by Immunohistochemistry has been shown to be of value in determining the aggressiveness of specific cancers, as well as in predicting patient outcome for many cancer types. Despite its routine clinical use, a problem with the standard scoring method is the inherent subjectivity and variability of purely visual inspection. To diminish this visual perception biasing, IHC profiler has been developed as a standard automated scoring tool. -x-x-x-x-x-x-x- Full Publication and Citation: Varghese F, Bukhari AB, Malhotra R, De A (2014) IHC Profiler: An Open Source Plugin for the Quantitative Evaluation and Automated Scoring of Immunohistochemistry Images of Human Tissue Samples. PLoS ONE 9(5): e96801. doi:10.1371/journal.pone.0096801 Link: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0096801 -x-x-x-x-x-x-x- Your feedback would be highly appreciated. Please rate so we can work on improving it further. Thank you! -
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The HAPI HL7v2 project has moved to the following home: https://hapifhir.github.io/hapi-hl7v2/
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MAGeCK
Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout
MAGeCK2 is here: https://github.com/davidliwei/mageck2 Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology. For instructions and documentations, please refer to the wiki page. MAGeCK is developed by Wei Li and Han Xu from Dr. Xiaole Shirley Liu's lab at Dana-Farber Cancer Institute/Harvard School of Public Health, and is maintained by Wei Li lab at Children's National Medical Center. We thank the support from Claudia Adams Barr Program in Innovative Basic Cancer Research and NIH/NHGRI to develop MAGeCK. -
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ezDICOM is a medical viewer for MRI, CT and ultrasound images. It can read images from Analyze, DICOM, GE Genesis, Interfile, Siemens Magnetom, Siemens Somatom and NEMA formats. It also includes tools for converting medical images from proprietary format
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Combenefit
Synergy analyses of drug and other other agent combinations
Combenefit software is a standalone application for Windows that performs surface analyses of drug and other agent combinations to identify synergy. Please cite as: "Di Veroli,G.Y. et al. (2016) Combenefit: an interactive platform for the analysis and visualization of drug combinations. Bioinformatics." (http://bioinformatics.oxfordjournals.org/content/early/2016/05/27/bioinformatics.btw230.abstract) Current version (2.021): https://sourceforge.net/projects/combenefit/files/Combenefit%202.02%20WIN_64%20%28PREFERRED%29/ Older version for 32-bit os: https://sourceforge.net/projects/combenefit/files/WIN_32/ Quick user's guide: https://sourceforge.net/projects/combenefit/files/Combenefit_v2.02_quick_guide_v1.03.pdf/download Examples: https://sourceforge.net/projects/combenefit/files/Examples/ Template file: https://sourceforge.net/projects/combenefit/files/REPLICATE_TEMPLATE.xls/download -
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HL7 Inspector
HL7 Inspector is a tool for managing HL7 messages
The HL7 Inspector project has moved to Bitbucket. https://bitbucket.org/crambow/hl7inspector All new releases can be found there. The web-based version can still be found at www.hl7inspector.com -
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ODIN
develop, simulate and run magnetic resonance sequences
ODIN is a free software framework for rapid prototyping of magnetic resonance imaging (MRI) sequences. The sequences can be tested, simulated and executed on scanner hardware from different manufacturers. -
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3DimViewer
3DimViewer is a lightweight 3D viewer of medical DICOM datasets.
3DimViewer is a lightweight 3D viewer of medical DICOM datasets that is distributed as open source software. The viewer is multiplatform software written in C++ that runs on Windows, Mac OS X and Linux systems. 3DimViewer source codes are available on Bitbucket (https://bitbucket.org/3dimlab/3dimviewer). Video tutorials can be found on YouTube (https://www.youtube.com/playlist?list=PLCvwUmKRw9ZO4YexLKEXmw_2jPo-kXVRn). -
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Vital Sign Simulator
Patient vital sign simulator for medical emergency training purposes
The vital sign simulator simulates a patient monitor and is intended for use in medical emergency training simulations. In combination with a (cheap) cpr-manikin, it offers a low-cost alternative to commercial high-tech patient simulation manikins. It is used with a dual monitor system, one monitor with controls for the operator and one providing the vital signs to the trainees. Heart rate, oxygen saturation, etCO2, respiratory rate, blood pressure and various moving ecg-samples can be set and changed at any time by the operator. The trainee-side interface allows automatic/manual defibrillation, cardioversion and pacing. -
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Febrl (Freely Extensible Biomedical Record Linkage) does data standardisation (segmentation and cleaning) and probabilistic record linkage ("fuzzy" matching) of one or more files or data sources which do not share a unique record key or identifier.
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GNU Health
GNU Health - The Free/Libre Hospital and Health Information System
GNU Health is the award-winning Hospital and Health Information System (HIS), declared a Digital Public Good and adopted by the United Nations . GNU Health Hospital and Lab information system is used by academic and research institutions around the globe. It is also used in public health system of countries such as Argentina, India, Jamaica, Laos, Cameroon, Suriname. GNU Health is an official GNU project. GNU Health is brought to you by GNU Solidario, an Non-Profit Organization (NGO) that focuses in Social Medicine.
