NCI Human Tumor Atlas Network (HTAN)

Pinned Repositories

data-models
Schema.org Data Models for HTAN
Language:HTML14 7 2437
dsa-htan
Analytics and Integration Scripts for Digital Slide Integration with Synapse for the Human Tumor Atlas Network (HTAN)
Language:Jupyter Notebook1 3 00
HTAN-data-curator
HTAN Data Ingest Shiny App
Language:R10
htan-portal
The HTAN Data Portal
Language:TypeScript9 4 35311
htan-vitessce-proto
An example configuration based off 10x visium tutorial
Language:Jupyter Notebook00
htan-webassets
Language:Python20
IDP
10
nf-vectra-to-htan
A NextFlow workflow to prepare Vectra mIF qptiff files for the HTAN DCC
Language:Nextflow2 1 11
s3batch-phi-detector
Language:Python10
schematic
Package for biomedical data model and data ingress management
Language:Python1 1 03

NCI Human Tumor Atlas Network (HTAN)'s Repositories

ncihtan/data-models
Schema.org Data Models for HTAN
Language:HTML14 7 2437
ncihtan/htan-portal
The HTAN Data Portal
Language:TypeScript9 4 35311
ncihtan/nf-vectra-to-htan
A NextFlow workflow to prepare Vectra mIF qptiff files for the HTAN DCC
Language:Nextflow2 1 11
ncihtan/dsa-htan
Analytics and Integration Scripts for Digital Slide Integration with Synapse for the Human Tumor Atlas Network (HTAN)
Language:Jupyter Notebook1 3 00
ncihtan/HTAN-data-curator
HTAN Data Ingest Shiny App
Language:R10
ncihtan/schematic
Package for biomedical data model and data ingress management
Language:Python1 1 03
ncihtan/bq-metadata-cloud-run
Set up a scheduled Cloud Run job to update HTAN metadata tables in BigQuery daily.
Language:Python01
ncihtan/Community-Notebooks
Language:Jupyter Notebook00
ncihtan/data-release-cloud-run
Google Cloud Run job to validate unreleased data files
Language:Python01
ncihtan/hdash_air
Language:Python00
ncihtan/HTAN-Data-Ingress-Docs-ARCHIVED
A draft of the HTAN dataset ingress workflow - to share with tester teams and early adopters.
00
ncihtan/htan_missing_manual
The HTAN Manual
Language:JavaScript0 2 111
ncihtan/mcmicro
Multiple-choice microscopy pipeline
Language:Nextflow00
ncihtan/nf-imagecleaner
nf-imagecleaner is a Nextflow pipeline that prepares images for upload to HTAN by removing sensitive data
Language:Python0 1 40
ncihtan/scn2ometiff
Language:Shell0 2 11
ncihtan/channel_metadata
Scripts and notebooks on collating, exposing and harmonising channel metadata
Language:Python
ncihtan/data_curator_config
Project configurations for the Data Curator App
ncihtan/dbgapmonitor
Script and action to monitor dbGaP authorized requestors
Language:Python
ncihtan/gcs-synapse-sync
Google Cloud Function code to index files in GC bucket by creating filehandles on Synapse, triggered by changes to bucket.
Language:Python1
ncihtan/hdash
Command line tool for generating HTAN dashboard.
Language:Python1
ncihtan/htan-artist
A NextFlow pipeline to run image rendering process to generate resources for the HTAN Portal.
Language:Nextflow
ncihtan/htan-monitor
Language:Python1 2
ncihtan/htan-orator
Natural language descriptions of HTAN metadata
Language:Python1
ncihtan/htancensor
A tool to de-identify tiff-based file formats for the HTAN DCC
Language:Python2 0
ncihtan/id-provenance
Google Cloud Function to update BigQuery ID Provenance table
Language:HCL1 01
ncihtan/readthedocs
Documentation for the ISB-CGC on Read the Docs.
Language:Python
ncihtan/s3-synapse-sync
Lambda function code to index files in S3 bucket by creating filehandles on Synapse
Language:Python
ncihtan/schema_visualization
This repository is for extracting D3 and Javascript code from observable to produce schema visualization
Language:JavaScript0 0
ncihtan/synapse_acl_reset
🔥 HTAN x Synapse ACL reset
Language:Python1 6
ncihtan/synapsemonitor
Enable monitoring of updates or newly created entities in Synapse
Language:Python0 0