@NIH-HPC

High-Performance Computing at the NIH

Repositories for tools developed by the NIH HPC staff. These tools are made available here as a courtesy, without any guarantee of support

Pinned repositories

  1. swarm

    Swarm is a script designed to simplify submitting a group of commands to the Biowulf cluster.

    Perl 1

  2. Singularity-Tutorial

    Materials for 3 hour hands-on workshop entitled "Creating and running software containers with Singularity"

    16 6

  3. python-in-hpc

    Materials for a Python in HPC class

    Jupyter Notebook 8

  4. singularity-examples

    example singularity definition files and demos

    Shell 2 2

  5. snakemake-class

    Class materials for the NIH HPC snakemake class

    Python 6 1

  • Swarm is a script designed to simplify submitting a group of commands to the Biowulf cluster.

    Perl 1 Updated Jul 14, 2018
  • example singularity definition files and demos

    Shell 2 2 Updated Jun 14, 2018
  • Python Interface to Slurm

    Python 49 GPL-2.0 Updated Jun 5, 2018
  • Tool for running/managing ad hoc spark clusters on a Slurm cluster

    Shell Updated May 13, 2018
  • base documentation site for Singularity software

    JavaScript 49 Updated May 7, 2018
  • A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python

    Python 1 136 Apache-2.0 Updated May 1, 2018
  • Translate PBS batch scripts to Slurm

    Python 2 Updated Apr 28, 2018
  • Class materials for the NIH HPC snakemake class

    Python 6 1 Updated Feb 21, 2018
  • An ensemble approach to accurately detect somatic mutations using SomaticSeq

    Shell 22 BSD-2-Clause Updated Feb 15, 2018
  • Ximmer is a system for CNV calling on exome and targeted genomic sequencing

    JavaScript 3 LGPL-2.1 Updated Feb 12, 2018
  • Materials for 3 hour hands-on workshop entitled "Creating and running software containers with Singularity"

    16 6 Updated Feb 6, 2018
  • Materials for a Python in HPC class

    Jupyter Notebook 8 Updated Dec 3, 2017
  • Updated Nov 20, 2017
  • 6 Updated Nov 20, 2017
  • Singularity: Application containers for Linux

    C 202 Updated Nov 15, 2017
  • HotNet2 is an algorithm for finding significantly altered subnetworks in a large gene interaction network

    Python 27 Updated Oct 5, 2017
  • Add GPU support to your Singularity container!

    Shell 9 5 Updated Jul 20, 2017
  • relion

    Forked from 3dem/relion

    Image-processing software for cryo-electron microscopy

    C++ 42 GPL-2.0 Updated May 9, 2017