Name: High-Performance Computing at the NIH
Type: Organization
Bio: Repositories for tools developed by the NIH HPC staff. These tools are made available here as a courtesy, without any guarantee of support
Location: Bethesda, MD, USA
Blog: https://hpc.nih.gov
High-Performance Computing at the NIH's Projects
Sample submit script for running ray on biowulf
Joint variant calling with GATK4 HaplotypeCaller, Google DeepVariant 1.0.0 and Strelka2, coordinated via Snakemake.
Add GPU support to your Singularity container!
HotNet2 is an algorithm for finding significantly altered subnetworks in a large gene interaction network
Integrated Differential Expression and Pathway analysis
Materials for introductory Julia class
moved to https://github.com/NIH-HPC/singularity-examples/tree/master/keras
Translate PBS batch scripts to Slurm
find a free TCP port
Python Interface to Slurm
Materials for a Python in HPC class
Image-processing software for cryo-electron microscopy
Submit R code to a Slurm cluster
Singularity: Application containers for Linux
definition files and wrapper scripts used by NIH HPC staff to install user-facing apps on the Biowulf cluster
example singularity definition files and demos
How to use Singularity!
base documentation site for Singularity software
Class materials for the NIH HPC snakemake class
Minimal snakemake profile for biowulf cluster
Tool for running/managing ad hoc spark clusters on a Slurm cluster
Swarm is a script designed to simplify submitting a group of commands to the Biowulf cluster.
moved to https://github.com/NIH-HPC/singularity-examples
A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python
Ximmer is a system for CNV calling on exome and targeted genomic sequencing