bmeg/fhirizer

Transforms and harmonizes data from Genomic Data Commons (GDC), Cellosaurus cell-lines, International Cancer Genome Consortium (ICGC), and Human Tumor Atlas Network (HTAN) repositories into 🔥 FHIR (Fast Healthcare Interoperability Resources) format.

Language: Python - Size: 3.06 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 0 - Forks: 0

bmeg/grip-graphql

A collection of go plugins used for connecting a Grip server to the Gen3 software stack

Language: Go - Size: 1.32 MB - Last synced at: 1 day ago - Pushed at: 2 days ago - Stars: 1 - Forks: 0

bmeg/git-gen3

Language: Go - Size: 78.1 KB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 0 - Forks: 0

bmeg/grip

Graph Integration Platform

Language: Go - Size: 14.2 MB - Last synced at: 1 day ago - Pushed at: 2 days ago - Stars: 25 - Forks: 8

bmeg/benchtop

Language: Go - Size: 7.42 MB - Last synced at: 1 day ago - Pushed at: 2 days ago - Stars: 0 - Forks: 0

bmeg/jsonschemagraph

Validate and generate graphs from data using JSON Schema Extension

Language: Go - Size: 1.09 MB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 0 - Forks: 0

bmeg/tractor

Airflow based builds

Language: Python - Size: 1.12 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 0 - Forks: 0

bmeg/grip-benchmark

Language: Python - Size: 1000 Bytes - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

bmeg/bmeg-site

Language: JavaScript - Size: 11.3 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 3

bmeg/iceberg

A clearinghouse for schemas "There is seven-eighths of it underwater for every part that shows."

Size: 3.15 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 2 - Forks: 0

bmeg/hnsw-index

Language: Go - Size: 31.3 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

bmeg/jsonschema Fork of santhosh-tekuri/jsonschema

JSONSchema (draft 2020-12, draft 2019-09, draft-7, draft-6, draft-4) Validation using Go

Language: Go - Size: 827 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

bmeg/lathe

Language: Go - Size: 544 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 0

bmeg/bmeg-etl

ETL configuration for BMEG

Language: Python - Size: 72.3 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 2

bmeg/grip-endpoints 📦

A collection of plugins for Reading/Writing to Grip. Oriented towards conforming with iceberg/gen3 schema.

Language: Go - Size: 218 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

bmeg/id_voter

Language: Go - Size: 2.93 KB - Last synced at: 12 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

bmeg/grip_ga4gh_search

Language: Go - Size: 36.1 KB - Last synced at: 12 months ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

bmeg/pfb_fhir

Render a PFB graph from FHIR data

Language: Python - Size: 19.1 MB - Last synced at: 14 days ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 1

bmeg/sifter

ETL Platform for building JSON schema based data and property graphs

Language: HTML - Size: 3.91 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 3 - Forks: 1

bmeg/iceberg-schema-tools

Create and maintain central iceberg schema.

Language: Python - Size: 30.7 MB - Last synced at: 12 months ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 0

bmeg/react-sidebar Fork of balloob/react-sidebar

A sidebar component for React

Language: JavaScript - Size: 473 KB - Last synced at: 15 days ago - Pushed at: over 7 years ago - Stars: 1 - Forks: 0

bmeg/fhir_curl

CLI for FHIR servers, sends same query to multiple servers, and merges the results.

Language: Python - Size: 19.5 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

bmeg/protograph

Transform a stream of messages into a graph

Language: Clojure - Size: 3.75 MB - Last synced at: 12 months ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 2

bmeg/cwltool Fork of common-workflow-language/cwltool

Common Workflow Language reference implementation

Language: Python - Size: 9.67 MB - Last synced at: 12 months ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

bmeg/ophion

Language for making graph queries from data

Language: Clojure - Size: 6.32 MB - Last synced at: 3 months ago - Pushed at: almost 7 years ago - Stars: 4 - Forks: 3

bmeg/bmeg-viewer 📦

Language: JavaScript - Size: 3.03 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

bmeg/fhir.resources Fork of nazrulworld/fhir.resources

FHIR Resources https://www.hl7.org/fhir/resourcelist.html

Size: 11.1 MB - Last synced at: 12 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

bmeg/protoc-gen-grpc-http-client

Language: Go - Size: 32.2 KB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

bmeg/protoc-gen-grpc-rest-direct

Language: Go - Size: 59.6 KB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

bmeg/goatee

Language: Go - Size: 5.86 KB - Last synced at: 7 months ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

bmeg/bmeg-dictionary Fork of uc-cdis/datadictionary

Gen3 Generic Data dictionary

Language: Python - Size: 670 KB - Last synced at: 12 months ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

bmeg/fhir-workshop

NCPI FHIR Code-a-thon

Language: Jupyter Notebook - Size: 20.1 MB - Last synced at: 12 months ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 2

bmeg/client-py Fork of gitpushdashf/client-py

Python SMART on FHIR client

Size: 14.4 MB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

bmeg/fhir-parser Fork of smart-on-fhir/fhir-parser

A Python FHIR specification parser and class generator

Size: 539 KB - Last synced at: 12 months ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

bmeg/gpython Fork of go-python/gpython

gpython is a python interpreter written in go "batteries not included"

Language: Go - Size: 967 KB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

bmeg/flame

Language: Go - Size: 65.4 KB - Last synced at: 7 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

bmeg/deployment

BMEG site setup and deployment

Language: Io - Size: 4.28 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 1

bmeg/gripper-sqlite

Language: Go - Size: 40 KB - Last synced at: 10 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

bmeg/gripper-pfb

Language: Go - Size: 79.1 KB - Last synced at: 10 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

bmeg/grip-query

Language: Python - Size: 67.4 KB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

bmeg/gripper-galaxy

Language: Python - Size: 1000 Bytes - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

bmeg/bmeg-dash

Language: Jupyter Notebook - Size: 2.29 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 1

bmeg/grip_terra

Language: Python - Size: 11.7 KB - Last synced at: 12 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

bmeg/grip_galaxy

Language: Python - Size: 5.86 KB - Last synced at: 12 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

bmeg/jsonpath Fork of oliveagle/jsonpath

golang jsonpath library. follow the majority rules in this article http://goessner.net/articles/JsonPath/

Language: Go - Size: 73.2 KB - Last synced at: 4 months ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 2

bmeg/grip_fhir

Language: Python - Size: 16.6 KB - Last synced at: 12 months ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

bmeg/python-cwlgen Fork of common-workflow-lab/python-cwlgen

Generation of CWL programmatically. Available types: CommandLineTool and DockerRequirement

Language: Python - Size: 88.9 KB - Last synced at: 12 months ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

bmeg/golib

Common utility functions for GO

Language: Go - Size: 5.86 KB - Last synced at: 12 months ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

bmeg/wiki

Extract to/from mediawiki

Language: PHP - Size: 43.9 KB - Last synced at: 12 months ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0

bmeg/deploy-bmeg

Language: Python - Size: 2.25 MB - Last synced at: 12 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

bmeg/gdan-tmp-webdash

Language: R - Size: 104 KB - Last synced at: 12 months ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 2

bmeg/analysis

Language: Jupyter Notebook - Size: 1.05 MB - Last synced at: 12 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

bmeg/bmeg.github.io

Language: CSS - Size: 622 KB - Last synced at: 12 months ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 0

bmeg/bmeg_to_cytoscape

renders bmeg schema into cytoscape import files

Language: Python - Size: 6.32 MB - Last synced at: 12 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

bmeg/sifter-tools

Language: Python - Size: 1.95 KB - Last synced at: 12 months ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

bmeg/vise

Language: Python - Size: 2.93 KB - Last synced at: 12 months ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

bmeg/py-gelnet

Cython wrapper for R gelnet ML library

Language: Python - Size: 22.5 KB - Last synced at: 12 months ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0

bmeg/go-swagger Fork of go-swagger/go-swagger

Swagger 2.0 implementation for go

Language: Go - Size: 45.8 MB - Last synced at: 10 months ago - Pushed at: about 6 years ago - Stars: 0 - Forks: 0

bmeg/grip-viewer

Language: JavaScript - Size: 285 KB - Last synced at: 12 months ago - Pushed at: about 6 years ago - Stars: 1 - Forks: 1

bmeg/griplab

Language: TypeScript - Size: 7.81 KB - Last synced at: 12 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

bmeg/schemas

schemas for biostream

Language: Python - Size: 989 KB - Last synced at: 12 months ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

bmeg/gaia

Focal point for gathering and analyzing biomedical evidence as a graph

Language: HTML - Size: 8.56 MB - Last synced at: 12 months ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 4

bmeg/ratify

validate all incoming messages

Language: Python - Size: 95.7 KB - Last synced at: 12 months ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

bmeg/ga4gh-schemas Fork of ga4gh/ga4gh-schemas

Models and APIs for Genomic data. FUTURE WORK DEPRECATED, DO NOT ADD COMMITS HERE.

Language: Python - Size: 4.1 MB - Last synced at: 12 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0

bmeg/schism

REST API for converting between genome builds

Language: Python - Size: 1000 Bytes - Last synced at: 12 months ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 0

bmeg/cwl-go

Language: Go - Size: 132 KB - Last synced at: 12 months ago - Pushed at: about 8 years ago - Stars: 3 - Forks: 0

bmeg/doc-index

Language: Go - Size: 4.88 KB - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 1 - Forks: 0

bmeg/common-workflow-language Fork of common-workflow-language/common-workflow-language

Repository for CWL Specifications. Use https://www.biostars.org/t/cwl/ for support.

Language: Python - Size: 2.8 MB - Last synced at: 12 months ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0

bmeg/bmeg-ml

Language: Jupyter Notebook - Size: 59.6 KB - Last synced at: 12 months ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0

bmeg/funnel-client Fork of prismofeverything/funnel

Trigger the Google Genomics Pipeline API with CWL

Language: Python - Size: 161 KB - Last synced at: 12 months ago - Pushed at: about 8 years ago - Stars: 11 - Forks: 2

bmeg/react-json-view Fork of mac-s-g/react-json-view

JSON viewer for react

Language: JavaScript - Size: 2.44 MB - Last synced at: 12 months ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 1

bmeg/gaia-bmeg

BMEG implementation project for Gaia

Language: Python - Size: 5.44 MB - Last synced at: 12 months ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 0

bmeg/bmeg-proxy

Language: HTML - Size: 14.6 MB - Last synced at: 12 months ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 1

bmeg/ml-schema

Language: Python - Size: 255 KB - Last synced at: 12 months ago - Pushed at: over 9 years ago - Stars: 1 - Forks: 1

bmeg/cwlproto

Language: Protocol Buffer - Size: 25.4 KB - Last synced at: 12 months ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0

bmeg/webpack-react-test

A reproducible test case of an issue when importing react components as a library using webpack

Language: JavaScript - Size: 1.74 MB - Last synced at: 12 months ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0

bmeg/scalapb-test

A test for scalapb oneof functionality

Language: Scala - Size: 1000 Bytes - Last synced at: 12 months ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0

bmeg/biopax-proto

Language: Protocol Buffer - Size: 17.6 KB - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0

bmeg/clustering-agent

Size: 1000 Bytes - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0

bmeg/scikit-docker

Size: 0 Bytes - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0

bmeg/workflow-execution-schemas Fork of ga4gh/workflow-execution-service-schemas

Size: 21.5 KB - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0

bmeg/cwllib

Language: Python - Size: 4.88 KB - Last synced at: 12 months ago - Pushed at: about 9 years ago - Stars: 1 - Forks: 0

bmeg/hash-fusion

A simple example workflow to demonstrate cwl

Size: 1000 Bytes - Last synced at: 12 months ago - Pushed at: over 8 years ago - Stars: 1 - Forks: 0

bmeg/normalization

Code for various signature normalization schemes.

Language: Groovy - Size: 86.9 KB - Last synced at: 12 months ago - Pushed at: almost 9 years ago - Stars: 0 - Forks: 0

bmeg/make_prediction

Python library for making predictions with existing linear models.

Language: Python - Size: 9.77 KB - Last synced at: 12 months ago - Pushed at: almost 9 years ago - Stars: 0 - Forks: 1

bmeg/sklearn_json

A python library to convert json represented ML model into scikit-learn classifier.

Language: Python - Size: 1.95 KB - Last synced at: 12 months ago - Pushed at: almost 9 years ago - Stars: 0 - Forks: 0