ncihtan Goto Github PK

bq-metadata-cloud-run

Set up a scheduled Cloud Run job to update HTAN metadata tables in BigQuery daily.

channel_metadata

Scripts and notebooks on collating, exposing and harmonising channel metadata

community-notebooks

data-models

Schema.org Data Models for HTAN

data-release-cloud-run

Google Cloud Run job to validate unreleased data files

data_curator_config

Project configurations for the Data Curator App

dbgapmonitor

Script and action to monitor dbGaP authorized requestors

dsa-htan

Analytics and Integration Scripts for Digital Slide Integration with Synapse for the Human Tumor Atlas Network (HTAN)

gcs-synapse-sync

Google Cloud Function code to index files in GC bucket by creating filehandles on Synapse, triggered by changes to bucket.

hdash

Command line tool for generating HTAN dashboard.

hdash_air

hsim

Command line tool for generating simulated HTAN metadata for the HTAN Data Portal.

htan-artist

A NextFlow pipeline to run image rendering process to generate resources for the HTAN Portal.

htan-data-curator

HTAN Data Ingest Shiny App

htan-data-ingress-docs-archived

A draft of the HTAN dataset ingress workflow - to share with tester teams and early adopters.

htan-monitor

htan-orator

Natural language descriptions of HTAN metadata

htan-portal

The HTAN Data Portal

htan-vitessce-proto

An example configuration based off 10x visium tutorial

htan-webassets

htan_missing_manual

HTAN - The Missing Manual

htancensor

A tool to de-identify tiff-based file formats for the HTAN DCC

id-provenance

Google Cloud Function to update BigQuery ID Provenance table

idp

image-header-validation

Matching manifest metadata to those in image headers

mcmicro

Multiple-choice microscopy pipeline

metadata-explorer

nf-imagecleaner

nf-imagecleaner is a Nextflow pipeline that prepares images for upload to HTAN by removing sensitive data

nf-vectra-to-htan

A NextFlow workflow to prepare Vectra mIF qptiff files for the HTAN DCC

readthedocs

Documentation for the ISB-CGC on Read the Docs.