singularity

A DSL for data-driven computational pipelines

Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.

Apptainer: Application containers for Linux

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Adasme et al. (2021), https://doi.org/10.1093/nar/gkab294

HPC Container Maker

Molecular dynamics and Monte Carlo soft matter simulation on GPUs.

Container-native task automation engine.

A docker image for converting docker images to singularity images.

Simplify HPC and Batch workloads on Azure

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

Docker/Singularity image for Ubuntu with X11 and VNC

Local filesystem registry for containers (intended for HPC) using Lmod or Environment Modules. Works for users and admins.

Singularity implementation of k8s operator for interacting with SLURM.

Tutorial for using Singularity containers

The Singularity implementation of the Kubernetes Container Runtime Interface

server for storage and management of singularity images

HIPAA & GDPR compliant ready parse-server with postgres/mongo, parse-hipaa-dashboard. Compatible with ParseCareKit

Nextflow pipeline for analysis of direct RNA Nanopore reads

Create container images for using Julia packages (especially useful in environments without Internet access)

Snakemake pipelines for nanopore sequencing data archiving and processing