Discover chop-dbhi/scds Open Source project by DBHi (@chop-dbhi)

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License
BSD 2-Clause "Sim...
Created over 9 years ago
Updated about 8 years ago

chop-dbhi

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Slowly-Changing Dimension Store (prototype)

prometheus-sql

Service that exposes Prometheus metrics for a SQL result set.

198

sql-agent

HTTP interface for executing ad-hoc SQL queries.

dataexpress

[NOT MAINTAINED] DataExpress is a simple, Scala-based cross database ETL toolkit supporting Postgres, MySql, Oracle, SQLServer, and Sqlite

Scala

dicom-anon

Python DICOM Anonymizer

Python

avocado

Metadata APIs for Django

Python

origins

Origins is an open source bi-temporal database for storing and retrieving facts for slowly-changing data. It support "time travel" queries and has built-in change detection.

django-forkit

**INACTIVE** Adds support for shallow and deep forking (copying) Django model instances.

Python

nats-rpc

RPC layer on top of NATS standardizing on Protocol Buffers.

twitter-adr-blstm

A model for finding mentions of adverse drug reactions in Twitter posts

Python

eda

eda is a library for implementing event-driven architectures.

cilantro

Official client for Harvest (http://harvest.research.chop.edu)

JavaScript

data-models

Collection of various biomedical data models in parseable formats.

harvest

Harvest CLI and starter project template

Python

studycentric

StudyCentric - research DICOM viewer

JavaScript

diff-table

varify

Clinical DNA Sequencing Analysis and Data Warehouse

JavaScript

serrano

Serrano implements a hypermedia API for Avocado. Avocado is a Django app which targets developers who are interested in letting their data do the work for them.

Python

modeltree

Django model relation tree traversal, i.e. automatic joins.

Python

sql-importer

Import CSV files into Postgres with automatic column typing and table creation.

dicom-pipeline

An automated pipeline for reviewing, anonymizing and publishing research DICOM studies

Python

drug_word_embeddings

development and intrinsic evaluation of drug related word embeddings using PubMed abstracts and DrugBank

Python

sepsis_01

Python

data-models-sqlalchemy

SQLAlchemy models and DDL and ERD generation from chop-dbhi/data-models style JSON endpoints.

Python

django-webhooks

Simple webhooks implementation for Django

Python

django-sts

State Transition System for Django

Python

django-dicom-review

JavaScript

harvest-vocab

Abstract models and manager for querying hierarchical data for Harvest

Python

django-redcap

Utilities for porting REDCap projects to and from Django models

Python

redcap-repeat

Script for REDCap data dictionaries to support repeating fields and groups of fields.

Python

netezza-docker

Dockerfile for the Netezza ODBC driver.

Shell

omop_harvest

OMOP CDMV4 data model with OSIM2 data in Harvest

JavaScript

vscode-multiline-string-editor

Edit multiline strings that need to be encoded as single-line strings (for example, JSON strings that contain literal `\n` characters) in Visual Studio Code.

TypeScript

arrc

AudgenDB radiology report text classification and REST service

Python

varify-data-warehouse

Data model and loading pipeline for Varify

Python

harvest-openmrs

Harvest demo application for OpenMRS

JavaScript

sql-schema-exporter

Utility to export schema information from a relational database to JSON.

Python

django-concerns

Django app for reporting privacy concerns

Python

schema-registry

General purpose schema registry.

redcap-pdf-plugin

Python

grin_pipeline

The exome pipeline used for the GRIN epilepsy pilot

Python

biorepo-portal

JavaScript

data-models-generator

Script to generate files in the data models format from common data sources.

Python

bitindex

Bitmap index for any, all, not any, and not all set operations.

twitter-adr-convnet

Convolutional NNets for tweet classification

Python

django-objectset

Set-like abstract model class for Django

Python

django-siteauth

Middleware that allows for site-wide URL-based access control

Python

HaaS

Harvest as a Service

Python

sql-extractor

aliases

A service for generating random external-facing aliases to internal identifiers.

htq

Queues HTTP requests and stores the response in Redis for later retrieval

Python

go-unats

A unified Go API for NATS and NATS Streaming.

ehb-datasources

datasource drivers, e.g. REDCap and Nautilus, that can be plugged into the Biorepository Portal

Python

harvest-template

Project template for Harvest applications.

JavaScript

origins-domains

Collection of curated domain models for Origins.

redcap-harvest

Dockerfile and tools for deriving Harvest applications from REDCap projects.

Shell

phenomantics

Multiple projects related to variant prioritization using phenotype semantic similarity

Scala

harvest-site

Website and documentation for The Harvest Stack

HTML

ehb-service

Python

etl-package

An ETL Framework using cbmi/dataExpress

Scala

data-models-django

Django model generator for chop-dbhi/data-models-service style JSON metadata.

Python

coriander

[NO LONGER ACTIVE} SCSS style sheets for django-cilantro

Ruby

typeselect

Wrapper for twitter/typeahead.js to enable multi-select input.

JavaScript

dicom-tools

Utility scripts for pushing and receiving DICOM files

Python

mybic

myBiC bioinformatics portal

JavaScript

updateurls

Utility script to update all urls in a text file to their latest location

Python

masino-lab-obesity-incidence

Obesity incidence research output under PBD project

Rich Text Format

sqltojson

Tool to build/export JSON documents from nested SQL queries.

data-models-service

Service for consuming files in the data models format.

origins-dispatch

Origins Dispatch service.

oss

Guide to CBMi's open sourced software

Python

varify-site

CSS

data-models-validator

Set of tools for validating data that should conform to a data model.

django-pdfappend

Simple django-app to retrieve multiple PDFs and return as a single PDF

Python

twitter-adr-lexicon

Adverse drug reaction Lucene index creator and event detection analysis

Python

chop-dbhi/scds

chop-dbhi

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