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Stacked-LSTM-for-Covid-19-Outbreak-Predictionby aparajitad60
Python 
18 Version:Current
License: No License (No License)
License: No License (No License)Coronavirus disease 2019 (COVID-19) is an infectious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).Coronavirus disease 2019 (COVID-19) is an infectious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). It was first identified in December 2019 in Wuhan, China, and has since spread globally, resulting in an ongoing pandemic. Long Short Term Memories(LSTMs) can solve numerous tasks not solvable by previous learning algorithms for recurrent neural networks (RNNs). LSTM is applicable to tasks such as unsegmented, connected handwriting recognition, speech recognition and anomaly detection in network traffic or IDS's (intrusion detection systems). LSTMs can also be efficiently applied for time-series predictions. In this project, its shows a four stacked LSTM network for early prediction new Coronavirus dissease infections in some of the mentioned affected countries (India, USA, Czech Republic and Russia) , which is based on real world data sets which are analyzed using various perspectives like day-wise number of confirmed cases, number of Cured cases, death cases. This attempt has been done to help the concerned authorities to get some early insights into the probable devastation likely to be effected by the deadly pandemic.
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JavaScript 18 Version:Current License: Permissive (Apache-2.0)
This repo demonstrates the use of collections to provide storage and retrieval of private data on the blockchain network for authorized peers of organizations. It shows how to use private data on the IBM Blockchain Platform.
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Built a simple web application using PHP and MySQL that allows a hospital to automate their daily tasks like online appointments, medical histories, patient details and doctor’s calendars.
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Open source interactive graphics for monitoring safety in clinical trial research.
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Author-Identification-taskby devanshdalal
Python 17 Version:Current License: No License (No License)
License: No License (No License)project implementation and codes for finding who wrote the given texts (using NLP)
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insilico Pathway Activation Network Decomposition Analysis (iPANDA) package. Owned by Insilico Medicine Inc. iPANDA is a pathway analysis method that aids interpretation of large-scale gene expression data. The method introduced here includes coexpression analysis and gene importance estimation to robustly identify relevant pathways and biomarkers for patient stratification.
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An algorithm for centromere assembly using long error-prone reads
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Python for Bioinformatics consist of a variety of python programmes,frequently used by bioinformaticians while handling biological data especially raw NGS data.
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Radiology information System, holds radiology specific text data. This system is use to Select a patient from the worklist that is automatically updated which appears on the modality monitor. Patient tracking and fetching previous patient images from PACS. RIS is also used for Creating radiologist reports, transcriptions, communicating with PACS to find images and film archiving. Each component talks to one another through Digital imaging and communication in medicine (DICOM) and Health Level-7 (HL7).
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Protein hint generation pipeline for gene finding in eukaryotic genomes
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Read DNA sequences from colourful Microsoft Word documents
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A Python package for gene-centric taxonomic and functional classification using phylogenetic placement
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Python 17 Version:Current License: Permissive (MIT)
Implementation of Deep Patient Representation of Clinical Notes at Intensive Care Unit for Multi-Task Prediction
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CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
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Medical images segmentation with 3D UNet GAN
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Reinforcement Learning based bioretrosynthesis tool
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Administration Plugin for SCP: Secret Lab
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A medical image converter
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scMatch: a single-cell gene expression profile annotation tool using reference datasets
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PyTorch implementation of PaccMann
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Large-scale automatic feature selection for biomarker discovery in high-dimensional OMICs data
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ENCODE whole-genome bisulfite sequencing (WGBS) pipeline
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Breast-cancer-diagnosis-using-Machine-Learningby Piyush-Bhardwaj
Python 16 Version:Current License: No License (No License)
License: No License (No License)Machine learning is widely used in bioinformatics and particularly in breast cancer diagnosis. In this project, certain classification methods such as K-nearest neighbors (K-NN) and Support Vector Machine (SVM) which is a supervised learning method to detect breast cancer are used.
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Open source engine for matching cancer patients to precision medicine clinical trials (V2).
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Pytorch-Unet3D-single_channelby davidiommi
Python 16 Version:Current License: No License (No License)
License: No License (No License)3D-Unet: patched based Pytorch implementation for medical images segmentation
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An Interactive Map of Biochemical Similarity in Molecular Datasets. The document: http://chemtreemap.readthedocs.org/en/latest/ . The project website:
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This simple and generic viewer allows you to visualize different kinds of data such as medical and biological images, 3D surfaces, electric signals (ECGs) and documents.
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A Manhattan plot in colorful virtual reality that adds frequency expression
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Medical image viewer based on DWV (DICOM Web Viewer) and jQuery UI.
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Healthcare is essential in daily life. Unfortunately, consultation with a doctor can be difficult to obtain, especially if we need advice on non-life threatening problems. The proposed idea is to create a system with Dialog Flow that can meet the patients requirements. Healthcare chatbot is built with medical applications having the potential to reduce healthcare cost and improves accessibility to medical knowledge by a simple chat through method. Chatbots are useful for patients and for those who want to learn more about health. The real benefit of the chatbot is to provide advice and information for an healthy life. A text-to-text diagnosis engages patients in conversation about their medical issues and provides a personalized diagnosis based on their symptoms and also sets appointment for the user. Hence, people will have an idea about their health and have the right protection and prevention.
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A package for designing activity-informed nucleic acid diagnostics for viruses.
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Learning Deformable Registration of Medical Images with Anatomical Constraints
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Wessim: Whole Exome Sequencing SIMulator using in silico exome capture
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structure detection program
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Building the constrained coding regions (CCR) model
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Reference genome quality scores
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This project focuses on interaction between Insurer, Insured Person (Patient), and Medical Facility
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BrainLab's hippocampal segmentation algorithm using CNNs
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A PyTorch implementation of image segmentation GAN from the paper "SegAN: Adversarial Network with Multi-scale L1 Loss for Medical Image Segmentation".
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Open source of Pyradiomics extension
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a Sequencing Quality Assessment Tool
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UTMOST (unified test for molecular signatures) is a method for cross-tissue gene expression imputation for transcriptome-wide association analyses.
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Java library to map LOINC-encoded test results to Human Phenotype Ontology
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The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information required to support data sharing and integration for foodborne infectious disease surveillance and outbreak investigations.
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(Windows) AMDock: Assisted molecular docking with AutoDock4 and AutoDockVina
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Project Manager for NGS data analysis
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scripts for the project of seven thaliana genomes assembly
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Official repository for RADTorch - The Medical Imaging Machine Learning Framework
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Stacked-LSTM-for-Covid-19-Outbreak-Predictionby aparajitad60
Coronavirus disease 2019 (COVID-19) is an infectious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).Coronavirus disease 2019 (COVID-19) is an infectious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). It was first identified in December 2019 in Wuhan, China, and has since spread globally, resulting in an ongoing pandemic. Long Short Term Memories(LSTMs) can solve numerous tasks not solvable by previous learning algorithms for recurrent neural networks (RNNs). LSTM is applicable to tasks such as unsegmented, connected handwriting recognition, speech recognition and anomaly detection in network traffic or IDS's (intrusion detection systems). LSTMs can also be efficiently applied for time-series predictions. In this project, its shows a four stacked LSTM network for early prediction new Coronavirus dissease infections in some of the mentioned affected countries (India, USA, Czech Republic and Russia) , which is based on real world data sets which are analyzed using various perspectives like day-wise number of confirmed cases, number of Cured cases, death cases. This attempt has been done to help the concerned authorities to get some early insights into the probable devastation likely to be effected by the deadly pandemic.
Python 18Updated: 4 y ago License: No License (No License)
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private-data-collections-on-fabricby IBM
This repo demonstrates the use of collections to provide storage and retrieval of private data on the blockchain network for authorized peers of organizations. It shows how to use private data on the IBM Blockchain Platform.
JavaScript 18Updated: 3 y ago License: Permissive (Apache-2.0)
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Hospital-Management-Systemby rishi772001
Built a simple web application using PHP and MySQL that allows a hospital to automate their daily tasks like online appointments, medical histories, patient details and doctor’s calendars.
PHP 18Updated: 2 y ago License: No License (No License)
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SafetyGraphics.github.ioby SafetyGraphics
Open source interactive graphics for monitoring safety in clinical trial research.
JavaScript 18Updated: 2 y ago License: Permissive (MIT)
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Author-Identification-taskby devanshdalal
project implementation and codes for finding who wrote the given texts (using NLP)
Python 17Updated: 4 y ago License: No License (No License)
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ipandaby varnivey
insilico Pathway Activation Network Decomposition Analysis (iPANDA) package. Owned by Insilico Medicine Inc. iPANDA is a pathway analysis method that aids interpretation of large-scale gene expression data. The method introduced here includes coexpression analysis and gene importance estimation to robustly identify relevant pathways and biomarkers for patient stratification.
Python 17Updated: 4 y ago License: Proprietary (Proprietary)
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centroFlyeby seryrzu
An algorithm for centromere assembly using long error-prone reads
Python 17Updated: 4 y ago License: Permissive (BSD-3-Clause)
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Python-for-Bioinformaticsby Ashish438
Python for Bioinformatics consist of a variety of python programmes,frequently used by bioinformaticians while handling biological data especially raw NGS data.
Python 17Updated: 4 y ago License: No License (No License)
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RadiologyInformationSystemby AlecCromer
Radiology information System, holds radiology specific text data. This system is use to Select a patient from the worklist that is automatically updated which appears on the modality monitor. Patient tracking and fetching previous patient images from PACS. RIS is also used for Creating radiologist reports, transcriptions, communicating with PACS to find images and film archiving. Each component talks to one another through Digital imaging and communication in medicine (DICOM) and Health Level-7 (HL7).
Java 17Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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ProtHintby gatech-genemark
Protein hint generation pipeline for gene finding in eukaryotic genomes
Python 17Updated: 4 y ago License: Proprietary (Proprietary)
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crazydocby Edinburgh-Genome-Foundry
Read DNA sequences from colourful Microsoft Word documents
Python 17Updated: 4 y ago License: Permissive (MIT)
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TreeSAPPby hallamlab
A Python package for gene-centric taxonomic and functional classification using phylogenetic placement
Python 17Updated: 3 y ago License: Strong Copyleft (GPL-3.0)
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deep-patient-representation-mimiciii-multitaskby Yuqi92
Implementation of Deep Patient Representation of Clinical Notes at Intensive Care Unit for Multi-Task Prediction
Python 17Updated: 4 y ago License: Permissive (MIT)
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CellOby deweylab
CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
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3DUnetby HandsomeBrotherShuaiLi
Medical images segmentation with 3D UNet GAN
Python 17Updated: 4 y ago License: No License (No License)
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RetroPathRLby brsynth
Reinforcement Learning based bioretrosynthesis tool
Python 17Updated: 4 y ago License: Permissive (MIT)
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GeneTEFlowby zhongw2
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AdminToolboxby Rnen
Administration Plugin for SCP: Secret Lab
C# 17Updated: 3 y ago License: Proprietary (Proprietary)
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dicomifierby lamyj
A medical image converter
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scMatchby asrhou
scMatch: a single-cell gene expression profile annotation tool using reference datasets
Python 16Updated: 4 y ago License: Permissive (MIT)
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paccmann_predictorby PaccMann
PyTorch implementation of PaccMann
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BioDiscMLby mickaelleclercq
Large-scale automatic feature selection for biomarker discovery in high-dimensional OMICs data
Java 16Updated: 4 y ago License: Strong Copyleft (GPL-3.0)
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wgbs-pipelineby ENCODE-DCC
ENCODE whole-genome bisulfite sequencing (WGBS) pipeline
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Breast-cancer-diagnosis-using-Machine-Learningby Piyush-Bhardwaj
Machine learning is widely used in bioinformatics and particularly in breast cancer diagnosis. In this project, certain classification methods such as K-nearest neighbors (K-NN) and Support Vector Machine (SVM) which is a supervised learning method to detect breast cancer are used.
Python 16Updated: 4 y ago License: No License (No License)
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matchengine-V2by dfci
Open source engine for matching cancer patients to precision medicine clinical trials (V2).
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Pytorch-Unet3D-single_channelby davidiommi
3D-Unet: patched based Pytorch implementation for medical images segmentation
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ChemTreeMapby ajing
An Interactive Map of Biochemical Similarity in Molecular Datasets. The document: http://chemtreemap.readthedocs.org/en/latest/ . The project website:
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rocket_viewerby bcnmedtech
This simple and generic viewer allows you to visualize different kinds of data such as medical and biological images, 3D surfaces, electric signals (ECGs) and documents.
JavaScript 16Updated: 4 y ago License: No License (No License)
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bigtopby dnanexus
A Manhattan plot in colorful virtual reality that adds frequency expression
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dwv-jquiby ivmartel
Medical image viewer based on DWV (DICOM Web Viewer) and jQuery UI.
JavaScript 16Updated: 2 y ago License: Strong Copyleft (GPL-3.0)
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homebridge-awair-localby deanlyoung
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Healthcare-Chatbotby OmRajpurkar
Healthcare is essential in daily life. Unfortunately, consultation with a doctor can be difficult to obtain, especially if we need advice on non-life threatening problems. The proposed idea is to create a system with Dialog Flow that can meet the patients requirements. Healthcare chatbot is built with medical applications having the potential to reduce healthcare cost and improves accessibility to medical knowledge by a simple chat through method. Chatbots are useful for patients and for those who want to learn more about health. The real benefit of the chatbot is to provide advice and information for an healthy life. A text-to-text diagnosis engages patients in conversation about their medical issues and provides a personalized diagnosis based on their symptoms and also sets appointment for the user. Hence, people will have an idea about their health and have the right protection and prevention.
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adaptby broadinstitute
A package for designing activity-informed nucleic acid diagnostics for viruses.
Python 16Updated: 2 y ago License: Permissive (MIT)
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ACRN_Chest_X-ray_IAby lucasmansilla
Learning Deformable Registration of Medical Images with Anatomical Constraints
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Wessimby sak042
Wessim: Whole Exome Sequencing SIMulator using in silico exome capture
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GenomonSVby Genomon-Project
structure detection program
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ccrby quinlan-lab
Building the constrained coding regions (CCR) model
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refereeby gwct
Reference genome quality scores
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sawtooth-healthcareby hyperledger-labs
This project focuses on interaction between Insurer, Insured Person (Patient), and Medical Facility
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HippMapp3rby mgoubran
BrainLab's hippocampal segmentation algorithm using CNNs
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SegANby gokriznastic
A PyTorch implementation of image segmentation GAN from the paper "SegAN: Adversarial Network with Multi-scale L1 Loss for Medical Image Segmentation".
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Py-rexby zhenweishi
Open source of Pyradiomics extension
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SQUATby luke831215
a Sequencing Quality Assessment Tool
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UTMOSTby Joker-Jerome
UTMOST (unified test for molecular signatures) is a method for cross-tissue gene expression imputation for transcriptome-wide association analyses.
Python 15Updated: 4 y ago License: No License (No License)
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loinc2hpoby monarch-initiative
Java library to map LOINC-encoded test results to Human Phenotype Ontology
Java 15Updated: 4 y ago License: Proprietary (Proprietary)
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genepioby GenEpiO
The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information required to support data sharing and integration for foodborne infectious disease surveillance and outbreak investigations.
Python 15Updated: 2 y ago License: Proprietary (Proprietary)
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AMDock-winby Valdes-Tresanco-MS
(Windows) AMDock: Assisted molecular docking with AutoDock4 and AutoDockVina
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pm4ngsby ncbi
Project Manager for NGS data analysis
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AMPRIL-genomesby schneebergerlab
scripts for the project of seven thaliana genomes assembly
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radtorchby radtorch
Official repository for RADTorch - The Medical Imaging Machine Learning Framework
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