Discover bioinformatics-ua/GDI_Pipeline Open Source project

GenericCDSS is a web-based application, which provides the main dashboard where professionals (e.g, practitioners, nurses) can follow all the patients that are under their responsibility and some details about the state of each one.

444

GenericCDSS

Workflow Management for Biomedical exploration

taska

Extracting Patients' information from clinical notes and export them to an OMOP CDM database.

DrAC

COEUS: Semantic Web Application Framework

COEUS

Resources for users and developers of Dicoogle

dicoogle-learning-pack

SCSS

BIcenter

A web-based platform that allows the building and management of ETL pipelines in a multi-institution environment.

Gimli is now part of Neji.

gimli

scaleus

Semantic Web Services Integration for Biomedical Applications

dicoogle-plugin-sample

Dicoogle Plugin - Sample

Dicoogle Client - Javascript

dicoogle-client-js

TypeScript

montra

Public release of Montra (previously called Catalogue). EMIF Catalogue is backed by Montra.

A toolkit for the research group's participations on the ImageCLEF challenges

imageclef-toolkit

BioCreative VII NLM-Chem track: full-text chemical identification and indexing in PubMed articles

biocreativeVII_track2

Patient trajectory modeling solution for clinical outcome prediction

PatientTM

The Cohort Migration Toolkit

CMToolkit

MIDAS is a multi-framework DataLoader that can be leverage to produce highly efficient data pipelines

midas

Patient Family History extraction tool

PatientFM

Flexible, easy and powerfull framework for faster biomedical concept recognition.

neji

polus

Rare Diseases Portal using COEUS framework

Diseasecard

A web solution to harmonise different Alzheimer's Disease cohorts into a standard data schema, using ETL processes in a multi-institution environment.

BIcenter-AD

Trigger recognition for event mining.

trigner

Dicoogle Webservices Wrapper for Java

dicoogle-java

EACL2021-reproducibility

Dicoogle API website source code and generation scripts

dicoogle-api

Shell

COMPACT

Compressor Benchmark Taxonomic Classification

R solution to identify gene expression signatures in microarray datasets

MicroGES

dicoogle-python

Dicoogle Webservices Wrapper for Python

Python tool to extract relevant information from Achilles to be used in the EHDEN Network Dashboards

AchillesLite

Console application to redesign mRNA nucleotide sequences (given as text strings) to enhance its secondary structure in terms of minimum free energy

mRNA-Optimiser

Tool for encrypt and decrypt fasta files to be send in a insecure communication channel

SecureFASTA

Posterior Playfair Searchable Encryption (PPSE)

PPSE

Semantic layer to convert multiple annotations files into RDF data

ann2rdf

Montra Webservices Wrapper for Python

montra-client-python

EuGene is a synthetic gene redesign software.

Eugene

BioKBQA - Biomedical Knowledge Base Question Answering

BioKBQA

Deep architectures for biomedical question answering

BioASQ

Application to anonymize DICOM files. It can be used as a standalone application or library

i2x

Ruby

jdicomanonymizer

BackupUploader

Enchytraeus Albidus Database

EnchyBASE

PHP

biodata-starter-kit-se-deployment-notes

Documentation of deployment of the GDI starter kit in Portuguese node

i2x-client

i2x client agent

Web Analysis of the Variome

WAVe

Groff

jquery-booleanquerywidget

It is a jquery plugin to build boolean queries in javascript

coeus-python

COEUS Python Client

Mongo DB Plugin for Dicoogle. It uses the MongoDB to File Storage and also for query.

dicoogle-mongo-plugin

A solution for migrating patients' information from the OMOP CDM database to TranSMART structure.

TranSMART-migrator

Geo Dropdown component for javascript

GeoDropdown.js

Serious games for hand arthritis rehabilitation

ArcadeBattle

scaleus-fair

scaleus-python

SCALEUS Python Client

dicoogle-couchdb-plugin

Dicoogle CouchDB Plugin

BioAnswer

Privacy preserving techniques applied to OMOP CDM

PrivacyCDM

KNOWLAM

A list of models capable of detect computed-generated text from human

PEI-detector-models