chop-dbhi/phenomantics chop-dbhi/phenomantics

  • Stars
    star
    1
  • Language
    Scala
  • Created over 10 years ago
  • Updated over 10 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
chop-dbhi/phenomantics
github

chop-dbhi

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Multiple projects related to variant prioritization using phenotype semantic similarity

More Repositories

1

prometheus-sql

Service that exposes Prometheus metrics for a SQL result set.
Go
198
star
2

sql-agent

HTTP interface for executing ad-hoc SQL queries.
Go
93
star
3

dataexpress

[NOT MAINTAINED] DataExpress is a simple, Scala-based cross database ETL toolkit supporting Postgres, MySql, Oracle, SQLServer, and Sqlite
Scala
71
star
4

dicom-anon

Python DICOM Anonymizer
Python
65
star
5

avocado

Metadata APIs for Django
Python
41
star
6

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.
Go
39
star
7

django-forkit

**INACTIVE** Adds support for shallow and deep forking (copying) Django model instances.
Python
37
star
8

nats-rpc

RPC layer on top of NATS standardizing on Protocol Buffers.
Go
34
star
9

twitter-adr-blstm

A model for finding mentions of adverse drug reactions in Twitter posts
Python
33
star
10

eda

eda is a library for implementing event-driven architectures.
Go
32
star
11

cilantro

Official client for Harvest (http://harvest.research.chop.edu)
JavaScript
28
star
12

data-models

Collection of various biomedical data models in parseable formats.
28
star
13

harvest

Harvest CLI and starter project template
Python
26
star
14

studycentric

StudyCentric - research DICOM viewer
JavaScript
26
star
15

diff-table

Go
24
star
16

varify

Clinical DNA Sequencing Analysis and Data Warehouse
JavaScript
24
star
17

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
20
star
18

modeltree

Django model relation tree traversal, i.e. automatic joins.
Python
18
star
19

sql-importer

Import CSV files into Postgres with automatic column typing and table creation.
Go
15
star
20

dicom-pipeline

An automated pipeline for reviewing, anonymizing and publishing research DICOM studies
Python
14
star
21

drug_word_embeddings

development and intrinsic evaluation of drug related word embeddings using PubMed abstracts and DrugBank
Python
14
star
22

sepsis_01

Python
12
star
23

data-models-sqlalchemy

SQLAlchemy models and DDL and ERD generation from chop-dbhi/data-models style JSON endpoints.
Python
11
star
24

django-webhooks

Simple webhooks implementation for Django
Python
9
star
25

django-sts

State Transition System for Django
Python
9
star
26

django-dicom-review

JavaScript
8
star
27

harvest-vocab

Abstract models and manager for querying hierarchical data for Harvest
Python
7
star
28

scds

Slowly-Changing Dimension Store (prototype)
Go
7
star
29

django-redcap

Utilities for porting REDCap projects to and from Django models
Python
6
star
30

redcap-repeat

Script for REDCap data dictionaries to support repeating fields and groups of fields.
Python
6
star
31

netezza-docker

Dockerfile for the Netezza ODBC driver.
Shell
5
star
32

omop_harvest

OMOP CDMV4 data model with OSIM2 data in Harvest
JavaScript
5
star
33

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
5
star
34

arrc

AudgenDB radiology report text classification and REST service
Python
4
star
35

varify-data-warehouse

Data model and loading pipeline for Varify
Python
4
star
36

harvest-openmrs

Harvest demo application for OpenMRS
JavaScript
4
star
37

sql-schema-exporter

Utility to export schema information from a relational database to JSON.
Python
3
star
38

django-concerns

Django app for reporting privacy concerns
Python
3
star
39

schema-registry

General purpose schema registry.
Go
3
star
40

redcap-pdf-plugin

Python
3
star
41

grin_pipeline

The exome pipeline used for the GRIN epilepsy pilot
Python
3
star
42

biorepo-portal

JavaScript
3
star
43

data-models-generator

Script to generate files in the data models format from common data sources.
Python
3
star
44

bitindex

Bitmap index for any, all, not any, and not all set operations.
Go
3
star
45

twitter-adr-convnet

Convolutional NNets for tweet classification
Python
2
star
46

django-objectset

Set-like abstract model class for Django
Python
2
star
47

django-siteauth

Middleware that allows for site-wide URL-based access control
Python
2
star
48

HaaS

Harvest as a Service
Python
2
star
49

sql-extractor

Go
2
star
50

aliases

A service for generating random external-facing aliases to internal identifiers.
Go
2
star
51

htq

Queues HTTP requests and stores the response in Redis for later retrieval
Python
2
star
52

go-unats

A unified Go API for NATS and NATS Streaming.
Go
2
star
53

ehb-datasources

datasource drivers, e.g. REDCap and Nautilus, that can be plugged into the Biorepository Portal
Python
2
star
54

harvest-template

Project template for Harvest applications.
JavaScript
1
star
55

origins-domains

Collection of curated domain models for Origins.
1
star
56

redcap-harvest

Dockerfile and tools for deriving Harvest applications from REDCap projects.
Shell
1
star
57

data-models-django

Django model generator for chop-dbhi/data-models-service style JSON metadata.
Python
1
star
58

harvest-site

Website and documentation for The Harvest Stack
HTML
1
star
59

ehb-service

Python
1
star
60

etl-package

An ETL Framework using cbmi/dataExpress
Scala
1
star
61

coriander

[NO LONGER ACTIVE} SCSS style sheets for django-cilantro
Ruby
1
star
62

typeselect

Wrapper for twitter/typeahead.js to enable multi-select input.
JavaScript
1
star
63

dicom-tools

Utility scripts for pushing and receiving DICOM files
Python
1
star
64

mybic

myBiC bioinformatics portal
JavaScript
1
star
65

updateurls

Utility script to update all urls in a text file to their latest location
Python
1
star
66

masino-lab-obesity-incidence

Obesity incidence research output under PBD project
Rich Text Format
1
star
67

sqltojson

Tool to build/export JSON documents from nested SQL queries.
Go
1
star
68

data-models-service

Service for consuming files in the data models format.
Go
1
star
69

origins-dispatch

Origins Dispatch service.
Go
1
star
70

django-pdfappend

Simple django-app to retrieve multiple PDFs and return as a single PDF
Python
1
star
71

oss

Guide to CBMi's open sourced software
Python
1
star
72

varify-site

CSS
1
star
73

data-models-validator

Set of tools for validating data that should conform to a data model.
Go
1
star
74

twitter-adr-lexicon

Adverse drug reaction Lucene index creator and event detection analysis
Python
1
star