The goal of this project is to show how to leverage Apache cTAKES along with Azure Search to build an effective document search application over medical content.
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TUTORIAL -> Django bootstrap 4 DICOM online viewer using python background
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A fast, powerful, and flexible way to get up to date COVID-19 data for any major city, state, country, and total world wide data, with just one line of code
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CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
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ClusterScan, search for clusters of features in a given annotation.
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Baby monitoring device that uses MIT's "Eulerian Video Magnification" to detect heart beat based on facial colour changes.
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ALFA: Annotation Landscape for Aligned Reads
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Post-processor for TopHat unmapped.bam files making them useable by downstream software.
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Android lifestyle and fitness app
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iPat allows you to perform GWAS and GS with drags and clicks!
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A comprehensive and intelligent clinical phasing tool
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Genopo a.k.a. F5N - A nanopore sequencing analysis toolkit for Android smartphones https://nanoporetech.com
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Java 
9 Version:Current License: Permissive (MIT)
This project for helping Blind People to recognize the what is in front of them(visuals in front of them) using Machine Learning, Python, Intel Movidius Neural Compute Stick (NCS) with Raspberry Pi-3 for Image Classification Application.
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Magyar Keresztény OpenLyrics adatbázis
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Explore and analyze biological sequence data
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Hierarchical-Genome-Assembly-HGAby aalokaily
Python 9 Version:Current License: Strong Copyleft (GPL-2.0)
Hierarchical genome assembly: de novo bacterial genome assembly using high coverage short sequencing reads
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Tools for working with WGBS data
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Haplotype-based somatic genome simulator
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A toolset for handling sequencing data with unique molecular identifiers (UMIs)
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isomiR quantification and analysis pipeline
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A python library for single cell whole-genome sequencing quality evaluation
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MoBiDiC Priorization Algorithm
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Text mining tool to retrieve protein-protein interactions from the scientific literature.
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A python library for programmatic usage of EBI InterPro Genome Properties.
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Django app for dealing with Human Genome Reference data and keeping it up to date. Syncs data from HGNC and UCSC (RefSeq, etc)
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CoMOLA is a generic python tool for Constrained Multi-objective Optimization of Land use Allocation. It offers a framework to explore a landscape’s potential for ecosystem service supply and biodiversity conservation considering land use conversion and areal coverage constraints. CoMOLA can be used immediately by inputting a raster map representing the status-quo land use, ready-to-run models written in R including their input data, and (optional) information on constraints. The end product is a set of pareto-optimal solutions (land use maps) from which decision makers can discuss and select appropriate solutions according to their preferences.
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Comment on Munoz-Rodriguez et al. (2018)
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Python code to extract features from Protein sequences for Machine Learning/Deep Learning
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A REST client for Orthanc DICOM servers
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Source code and examples for translation of VCF files into FHIR format
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Teil des #WirVsVirus Hackathon. Idee ist im Prinzip digitale Abreißnummern zu haben. Man kreuzt irgendwo auf, registriert sich in einer Warteschlange und wird notifiziert, wenn man dran ist.
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COVID-19 corpus with annotated biomedical entities.
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Insight_Data_Engineering_Projectby MaryamBisadi
Python 9 Version:Current
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A collection of Python modules equivalent to R ReQTL Toolkit aims to identify the association between expressed SNVs with their gene expression using RNA-sequencing data.
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SERIMI approach for RDF Interlinking
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Struct + validation + inheritable + default_value + etc...
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Mocking library based on composition
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This is a Doctor's Appointment application that is intended to showcase full-stack web development skills, particularly in Ruby on Rails and React. Doctor's Appointments employs an API tied to a frontend written in React, and is made using the methodology and specifications of the Capstone Project provided by Microverse. This project asks students to build an industry-level application to show some of the skills learned during the full-stack development course. Click here to see the project requirements. The original design of this application includes other modules that could potentially be developed: a feature that requests as an ambulance, or one for buying medication. I definitely want to implement those features in the future. I would also like to implement a feature in which doctors can register and open their availability for appointments, keep track of their patients, and register their clinic history and feedback. Since there is also currently the ability for patients to grade the doctor's service, I think it could also be useful to add a feature that enables doctors to grade and register the behavior of the patients as well as their discipline when it comes to maintaining recommended diets or taking their medication.
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hl7-resource-patientby clinical-meteor
JavaScript 9 Version:Current License: No License (No License)
License: No License (No License)HL7 Argonaut FHIR - Patient Resource
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TCGA Splicing Variation Database
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An automated protocol to extract variation or expression from public NGS datasets
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Custom starter for Gatsby with a specific setup and structure for my favorite Bootstrap 4 and SCSS setup. Contains Jest and Enzyme for unit testing.
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Java library for mapping phylogenetic trees and geographical information in KML
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Android App of Pharma Focus is online Healthcare and Medicine platform.
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A Hospital API backend written in Spring Boot with Spring Security, JPA and using Domain Driven Design and Test Driven Development. Front end which consumes it: https://github.com/MohammedRiazKhan/HospitalSystemFrontEnd
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InterMine Client library in Python
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3D Slicer module for browsing and downloading medical imaging collections from The Cancer Imaging Archive (TCIA).
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Genome annotation data analysis and management implemented in pure Python
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search-dotnet-medical-nerby Azure-Samples
The goal of this project is to show how to leverage Apache cTAKES along with Azure Search to build an effective document search application over medical content.
JavaScript 9Updated: 4 y ago License: Permissive (MIT)
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dicom_django_viewerby bygregonline
TUTORIAL -> Django bootstrap 4 DICOM online viewer using python background
JavaScript 9Updated: 4 y ago License: Weak Copyleft (LGPL-3.0)
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covid19_pythonby binarynightowl
A fast, powerful, and flexible way to get up to date COVID-19 data for any major city, state, country, and total world wide data, with just one line of code
Python 9Updated: 4 y ago License: Permissive (MIT)
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CONNETby HKU-BAL
CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
Python 9Updated: 4 y ago License: No License (No License)
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MICCAI19-Ki-GANby chenyilan
Python 9Updated: 4 y ago License: No License (No License)
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ClusterScanby pyrevo
ClusterScan, search for clusters of features in a given annotation.
Python 9Updated: 7 y ago License: Strong Copyleft (GPL-3.0)
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BabyFaceby Alescontrela
Baby monitoring device that uses MIT's "Eulerian Video Magnification" to detect heart beat based on facial colour changes.
Python 9Updated: 4 y ago License: Proprietary (Proprietary)
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ALFAby biocompibens
ALFA: Annotation Landscape for Aligned Reads
Python 9Updated: 5 y ago License: Permissive (MIT)
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tophat-reconditionby cbrueffer
Post-processor for TopHat unmapped.bam files making them useable by downstream software.
Python 9Updated: 6 y ago License: Proprietary (Proprietary)
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iPatby Poissonfish
iPat allows you to perform GWAS and GS with drags and clicks!
Java 9Updated: 4 y ago License: No License (No License)
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smart-phaseby paulhager
A comprehensive and intelligent clinical phasing tool
Java 9Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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DermaHackby PikkaPikkachu
Java 9Updated: 4 y ago License: No License (No License)
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f5nby SanojPunchihewa
Genopo a.k.a. F5N - A nanopore sequencing analysis toolkit for Android smartphones https://nanoporetech.com
Java 9Updated: 4 y ago License: Permissive (MIT)
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Image-Recognition-and-Classification-Device-for-Blindsby akhilaku
This project for helping Blind People to recognize the what is in front of them(visuals in front of them) using Machine Learning, Python, Intel Movidius Neural Compute Stick (NCS) with Raspberry Pi-3 for Image Classification Application.
Java 9Updated: 4 y ago License: Permissive (MIT)
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aszafby gyuris
Magyar Keresztény OpenLyrics adatbázis
Python 9Updated: 2 y ago License: Strong Copyleft (CC-BY-SA-4.0)
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smofby incertae-sedis
Explore and analyze biological sequence data
Python 9Updated: 4 y ago License: Permissive (MIT)
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Hierarchical-Genome-Assembly-HGAby aalokaily
Hierarchical genome assembly: de novo bacterial genome assembly using high coverage short sequencing reads
Python 9Updated: 6 y ago License: Strong Copyleft (GPL-2.0)
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WGBS_Toolsby kwdunaway
Tools for working with WGBS data
Python 9Updated: 5 y ago License: Proprietary (Proprietary)
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tHapMixby Illumina
Haplotype-based somatic genome simulator
Python 9Updated: 4 y ago License: Proprietary (Proprietary)
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u
umitoolsby weng-lab
A toolset for handling sequencing data with unique molecular identifiers (UMIs)
Python 9Updated: 5 y ago License: Proprietary (Proprietary)
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quagmirby kevchn
isomiR quantification and analysis pipeline
Python 9Updated: 5 y ago License: Permissive (MIT)
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PaSDqcby parklab
A python library for single cell whole-genome sequencing quality evaluation
Python 9Updated: 4 y ago License: Permissive (MIT)
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ppaxeby scastlara
Text mining tool to retrieve protein-protein interactions from the scientific literature.
Python 9Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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pygenpropby Micromeda
A python library for programmatic usage of EBI InterPro Genome Properties.
Python 9Updated: 2 y ago License: Permissive (Apache-2.0)
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django-genomeby chopdgd
Django app for dealing with Human Genome Reference data and keeping it up to date. Syncs data from HGNC and UCSC (RefSeq, etc)
Python 9Updated: 2 y ago License: Permissive (MIT)
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CoMOLAby michstrauch
CoMOLA is a generic python tool for Constrained Multi-objective Optimization of Land use Allocation. It offers a framework to explore a landscape’s potential for ecosystem service supply and biodiversity conservation considering land use conversion and areal coverage constraints. CoMOLA can be used immediately by inputting a raster map representing the status-quo land use, ready-to-run models written in R including their input data, and (optional) information on constraints. The end product is a set of pareto-optimal solutions (land use maps) from which decision makers can discuss and select appropriate solutions according to their preferences.
Python 9Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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kumaraby mmatschiner
Comment on Munoz-Rodriguez et al. (2018)
Python 9Updated: 6 y ago License: No License (No License)
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Protein-feature-extractionby jithin8mathew
Python code to extract features from Protein sequences for Machine Learning/Deep Learning
Python 9Updated: 4 y ago License: Permissive (MIT)
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berenby teffalump
A REST client for Orthanc DICOM servers
Python 9Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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VCF-2-FHIRby openelimu
Source code and examples for translation of VCF files into FHIR format
Python 9Updated: 4 y ago License: No License (No License)
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digitaleswartenby methodpark
Teil des #WirVsVirus Hackathon. Idee ist im Prinzip digitale Abreißnummern zu haben. Man kreuzt irgendwo auf, registriert sich in einer Warteschlange und wird notifiziert, wenn man dran ist.
Python 9Updated: 4 y ago License: Permissive (Apache-2.0)
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c
covid19-corpusby davidcampos
COVID-19 corpus with annotated biomedical entities.
Python 9Updated: 4 y ago License: Permissive (MIT)
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Insight_Data_Engineering_Projectby MaryamBisadi
Python 9Updated: 4 y ago License: No License (No License)
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PyReQTLby nalomran
A collection of Python modules equivalent to R ReQTL Toolkit aims to identify the association between expressed SNVs with their gene expression using RNA-sequencing data.
Python 9Updated: 4 y ago License: Permissive (MIT)
9Updated: 4 y ago License: Permissive (MIT)Support
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SERIMI-RDF-Interlinkingby samuraraujo
SERIMI approach for RDF Interlinking
Ruby 9Updated: 4 y ago License: No License (No License)
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striuctby kachick
Struct + validation + inheritable + default_value + etc...
Ruby 9Updated: 3 y ago License: Permissive (MIT)
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derideby guzzlerio
Mocking library based on composition
JavaScript 9Updated: 7 y ago License: Permissive (MIT)
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doctorsby carloshdelreal
This is a Doctor's Appointment application that is intended to showcase full-stack web development skills, particularly in Ruby on Rails and React. Doctor's Appointments employs an API tied to a frontend written in React, and is made using the methodology and specifications of the Capstone Project provided by Microverse. This project asks students to build an industry-level application to show some of the skills learned during the full-stack development course. Click here to see the project requirements. The original design of this application includes other modules that could potentially be developed: a feature that requests as an ambulance, or one for buying medication. I definitely want to implement those features in the future. I would also like to implement a feature in which doctors can register and open their availability for appointments, keep track of their patients, and register their clinic history and feedback. Since there is also currently the ability for patients to grade the doctor's service, I think it could also be useful to add a feature that enables doctors to grade and register the behavior of the patients as well as their discipline when it comes to maintaining recommended diets or taking their medication.
Ruby 9Updated: 3 y ago License: No License (No License)
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hl7-resource-patientby clinical-meteor
HL7 Argonaut FHIR - Patient Resource
JavaScript 9Updated: 4 y ago License: No License (No License)
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TSVdbby wenjie1991
TCGA Splicing Variation Database
JavaScript 9Updated: 4 y ago License: No License (No License)
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deSRAby NCBI-Hackathons
An automated protocol to extract variation or expression from public NGS datasets
JavaScript 9Updated: 2 y ago License: Permissive (MIT)
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g
gatsby-starter-customby programmiri
Custom starter for Gatsby with a specific setup and structure for my favorite Bootstrap 4 and SCSS setup. Contains Jest and Enzyme for unit testing.
JavaScript 9Updated: 5 y ago License: Permissive (MIT)
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phyloGeoRefby kdiverson
Java library for mapping phylogenetic trees and geographical information in KML
Java 8Updated: 4 y ago License: No License (No License)
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Pharma-Focus-Androidby harinder2612
Android App of Pharma Focus is online Healthcare and Medicine platform.
Java 8Updated: 4 y ago License: No License (No License)
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HospitalSystemby MohammedRiazKhan
A Hospital API backend written in Spring Boot with Spring Security, JPA and using Domain Driven Design and Test Driven Development. Front end which consumes it: https://github.com/MohammedRiazKhan/HospitalSystemFrontEnd
Java 8Updated: 2 y ago License: No License (No License)
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intermine-ws-pythonby intermine
InterMine Client library in Python
Python 8Updated: 3 y ago License: Proprietary (Proprietary)
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TCIABrowserby QIICR
3D Slicer module for browsing and downloading medical imaging collections from The Cancer Imaging Archive (TCIA).
Python 8Updated: 4 y ago License: Proprietary (Proprietary)
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tagby standage
Genome annotation data analysis and management implemented in pure Python
Python 8Updated: 2 y ago License: Permissive (BSD-3-Clause)
8Updated: 2 y ago License: Permissive (BSD-3-Clause)Support
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