Andrew Crabb's repositories
service-workbench-new-workspace-guide
Guide to adding a new workspace to Service Workbench
amazon-genomics-cli-demos
Demos of what can be done with the Amazon Genomics CLI
emr-on-service-workbench
EMR workspace type on Service Workbench
hail-on-AWS-spot-instances
An option to spin cost effective EMR clusters in AWS with Hail and JupyterNotebook installed
service-workbench-on-aws
A platform that provides researchers with one-click access to collaborative workspace environments operating across teams, universities, and datasets while enabling university IT stakeholders to manage, monitor, and control spending, apply security best practices, and comply with corporate governance.
amazon-comprehend-medical-image-deidentification
De-identify medical images with the help of Amazon Comprehend Medical and Rekognition.
aws-cloudformation-templates
A collection of useful CloudFormation templates
aws-genomics-workflows
Genomics Workflows on AWS
aws-genomics-workflows-crabba
Modified fork of aws-genomics-workflows
aws-gatk-sv
This repo will host the templates and scripts needed for enabling gatk-sv pipeline on Cromwell EC2 server
crabba.github.io
Website
cromwell-cli
Run GWOA Cromwell from the command line
long-read-pipelines
Long read production pipelines
medical-image-deident
Medical image de-identification workshop
no-tears-cluster
1-Click Cluster Deployment with AWS ParallelCluster
orthanc-dicom-s3-ingestion
Solution using Orthanc to receive and store DICOM images in S3
python-cli
Basic Python CLI script
rnaseq-nf
A proof of concept of RNAseq pipeline
rsna-2023-monai-aws-workshop
Workshop instructions for MONAI on AWS
s3-dicom-processing
Serverless processing of DICOM files received in S3
seurat-docker
Docker images of Seurat
sphinx-base
Base Sphinx project
subtelomere_analysis
Nextflow workflow development
swb-workshop
SWB Workshop