Collaborative Container Modules with Singularity Registry HPC
Collaborative Container Modules with Singularity Registry HPC - Published in JOSS (2021)
Sciris
Sciris: Simplifying scientific software in Python - Published in JOSS (2023)
x11docker
x11docker: Run GUI applications in Docker containers - Published in JOSS (2019)
cwl_runner
Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊
dockstore
An app store for scientific workflows, tools, notebooks, and services
Singularity Registry
Singularity Registry: Open Source Registry for Singularity Images - Published in JOSS (2017)
Containershare
Containershare: Open Source Registry to build, test, deploy with CircleCI - Published in JOSS (2018)
cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
https://github.com/sylabs/singularity
SingularityCE is the Community Edition of Singularity, an open source container platform designed to be simple, fast, and secure.
udocker
A basic user tool to execute simple docker containers in batch or interactive systems without root privileges.
neurodocker
Generate custom Docker and Singularity images, and minimize existing containers
https://github.com/lablup/backend.ai
Backend.AI is a streamlined, container-based computing cluster platform that hosts popular computing/ML frameworks and diverse programming languages, with pluggable heterogeneous accelerator support including CUDA GPU, ROCm GPU, TPU, IPU and other NPUs.
jetson-containers
Machine Learning Containers for NVIDIA Jetson and JetPack-L4T
https://github.com/pachyderm/pachyderm
Data-Centric Pipelines and Data Versioning
rworkflows
Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.
scif
scientific filesystem: a filesystem organization for scientific software and metadata
https://github.com/anchore/grype
A vulnerability scanner for container images and filesystems
https://github.com/crowdstrike/falcon-scripts
Scripts to streamline the deployment and use of the CrowdStrike Falcon sensor
https://github.com/crowdstrike/falcon-operator
https://github.com/crowdstrike/container-image-scan-action
CrowdStrike Container Image Scan Github Action
https://github.com/crowdstrike/ivan
Falcon Image Vulnerability Analysis (IVAN) is a command-line image assessment tool.
https://github.com/deepfence/threatmapper
Open Source Cloud Native Application Protection Platform (CNAPP)
https://github.com/agnostiqhq/covalent-docker-dev
Dockerfiles used for building and developing Covalent in various environments
vent
Vent is a light-weight platform built to automate network collection and analysis pipelines using a flexible set of popular open source tools and technologies. Vent is python-based, extensible, leverages docker containers, and provides both an API and CLI.
singularity
command line tool for working with singularity hub and singularity containers
HelpMe Command Line Helper Utility
HelpMe Command Line Helper Utility - Published in JOSS (2018)
https://github.com/warewulf/warewulf
Warewulf is a stateless and diskless container operating system provisioning system for large clusters of bare metal and/or virtual systems.
https://github.com/Trow-Registry/trow
Container Registry and Image Management for Kubernetes Clusters
https://github.com/ceems-dev/ceems
A Prometheus exporter and a REST API server to export metrics of compute units of resource managers like SLURM, Openstack, k8s, _etc_
https://github.com/angrymaciek/angry-runner
Docker image recipe for a self-hosted GitHub Actions runner / development environment
https://github.com/bytedance/varmor
vArmor is a cloud native container sandbox system based on AppArmor/BPF/Seccomp. It also includes multiple built-in protection rules that are ready to use out of the box.
shpc-registry-cache
A cache of container executables (currently featuring the BioContainers) 🗃️
containers-introduction-training
Course website "Docker and Singularity for reproducible research: getting started with containers"
kube-burner
Kubernetes performance and scale test orchestration framework written in golang
Tesseract Core
Tesseract Core: Universal, autodiff-native software components for Simulation Intelligence - Published in JOSS (2025)
docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
https://github.com/databio/bulker
Manager for multi-container computing environments
https://github.com/con/shub
GitHub mirror of http://datasets.datalad.org/?dir=/shub providing historical copy of containers from https://singularity-hub.org
https://github.com/bast/apptainer-conda
Local Conda environments via Apptainer.