Explore @thehyve Open Source projects

The Hyve (@thehyve)

thehyve

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Location 🇳🇱 Netherlands
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CSS
1,227

react-json-to-table

react-json-to-table

glowing-bear

🐻 The open source cohort selection and analysis interface

sas-convert

Simple SAS7BDAT to CSV conversion tool based on the Parso library.

transmart-core

Core components and documentation of the tranSMART platform. https://i2b2transmart.org/

react-mutation-plot

A light weight adaptation React based mutation lollipop plot from cBioPortal frontend.

podium

Podium request portal for biobanks

fairspace

Fairspace provides a secure environment for managing research data.

transmart-batch

tranSMART pipeline alternative to ETL, using Spring Batch

react-select-checked

A React select component based on JedWatson/React-Select with checkmarks on selected options.

pg_bitcount

PostgreSQL extension providing a bitcount function.

python_claml

A ClaML reader for Python

glowing-bear-docker

Docker scripts for Glowing Bear

ukbiobank-omop-etl

Resources and documentation for UK Biobank to OMOP CDM v5.3.1 conversion

cbioportal-docker

A context to create cBioPortal docker images

transmart-api-client-py

🐍 Python client for tranSMART Glowing Bear

tmtk

tranSMART Arborist ETL toolkit

transmart-rest-api

HTTP available tranSMART RESTful API

ohdsi-etl-abucasis

Transformation scripts for Inclivia's Abucasis EHR data | BigData@Heart consortium

davfs2

Mount a WebDAV resource as a regular file system. This repository is a copy of the original repository with project specific patches in the fairspace branch.

ohdsi-drug-mapping

Drug mapping script to map drugs to RxNorm drugs. Note that the data files are contained within the repository.

ohdsi-DeriveVariables

R package for deriving variables from the OMOP Common Data Model.

dbxpModuleBase

Grails plugin that provides basic functionality for dbXP module plugins.

dntp-portal

Request portal for Dutch pathology labs.

ohdsi-etl-caliber

ETL scripts for caliber data

transmart-data

Tools for managing tranSMART's database

ohdsi-etl-sweden

ETL procedure to OMOP CDM for Swedish health data.

matrixImporter

Grails plugin for importing tab delimited, Excel 97/2003/2007 and CSV files

arborist

TranSMART Arborist: Graphical tool for reshaping your data for the tranSMART data warehouse.

python_csr2transmart

Scripts for converting CSR data to TranSMART

tr_idm

A terraform config for provisioning of Idm

python_transmart_loader

TranSMART loader library for Python

transmart-api-training

Data science with tranSMART REST API in Python and R

Jupyter Notebook

transmart-hyper-dicer

Export a subset of data from a TranSMART instance based on a query, and upload them to a different (empty) TranSMART instance using transmart-copy. Short for TranSMART hypercube dicer.

SAM

Simple Assay Module

Open-Clinica-Data-Uploader

Next version of Open Clinica Data Importer

spss-sav-pseudonymization

Small utility to replace numeric identifiers from SPSS sav files.

react-gtex-viz

React components for visualisations from the GTEx web portal

transmart-fair-data-point

TranSMART FAIR data point

data-showcase

A data showcase for displaying a summary of data in TranSMART.

puppet-transmart_core

Puppet module for TranSMART

python_claml2transmart

ClaML ontology to TranSMART loader

food4me-webservice

dalliance-plugin

cbioportal-gsva-analysis

GSVA score and p-value calculation for TCGA studies in cBioPortal

transmart-arborist-deprecated

Superseded by https://github.com/thehyve/arborist

blast2html

A command line tool + Galaxy plugin to convert blast XML output into a nicely readable html page

coding-dojo

transmart-android

Android Client for TranSMART

pmc-conversion

Data extraction, transformation and loading pipeline for the Princess Maxima Center

ohdsi-etl-prias

Transformation from PRIAS to the OMOP CDM

transmart-core-db

Implementation of transmart-core-api for PostgreSQL/Oracle/H2

whereabouts

Data warehouse Inventory Management System

ohdsi-covid19-site

OHDSI COVID-19 studyathon website

heim-SmartR

gb-backend

Backend application for Glowing Bear UI, supporting user queries management, subscription and notification functionality

ohdsi-schemas

transmart-mydas

transmart-packer

data jobs for transmart

variant

A database for storing genotype-phenotype mappings from literature. This project was commissioned by TNO Quality of Life under the EU FP7 EURRECA project.

transmart-variant-store-connector

Variant store connector for the TranSMART API

python_fhir2transmart

FHIR to TranSMART loader

biocypher-cbioportal

a cBioPortal adapter for the BioCypher framework

quisper-configuration-public

Configuration for the quisper nginx proxy.

transmart-lib

TranSMART API client library and proxy

glowing-bear-site

Github pages for Glowing Bear website

transmartApp-doc

python_ontology2transmart

Example ontology to TranSMART loader

amazing-planning-generator

Sharks gotta swim. Bats gotta fly. And I'll need a weekly planning till I die.

fairspace-jupyter

Code for connecting JupyterHub to Fairspace

smart-r-js

puppet-glowing_bear

Puppet module for Glowing Bear

podium-registry

BBMRI Podium Microservices Registry