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Projects in Awesome Lists tagged with singularity

A curated list of projects in awesome lists tagged with singularity .

https://github.com/apptainer/singularity

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.

cloud-native container containers hpc linux parallel portability portable reproducible reproducible-science rootless-containers science singularity singularity-container

Last synced: 15 Jan 2026

https://github.com/pharmai/plip

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

bioinformatics docker openbabel pdb plip protein-structure python-bindings scientific-computing singularity

Last synced: 21 Oct 2025

https://github.com/singularityhub/docker2singularity

A docker image for converting docker images to singularity images.

docker docker-image singularity singularity-images

Last synced: 03 Sep 2025

https://github.com/singularityhub/singularity-hpc

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

containers hpc lmod reproducibility singularity

Last synced: 16 May 2025

https://github.com/sylabs/wlm-operator

Singularity implementation of k8s operator for interacting with SLURM.

hpc k8s kubernetes kubernetes-operator singularity slurm

Last synced: 14 Jan 2026

https://github.com/sylabs/singularity-cri

The Singularity implementation of the Kubernetes Container Runtime Interface

containers cri hpc kubernetes singularity singularity-cri

Last synced: 26 Mar 2025

https://github.com/singularityhub/sregistry

server for storage and management of singularity images

containers management registry singularity singularity-containers singularityhub

Last synced: 11 Apr 2025

https://github.com/netreconlab/parse-hipaa

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

baas backend-as-a-service carekit cloud docker gdpr graphql hacktoberfest healthcare hipaa mbaas mongodb parse-dashboard parse-server postgis postgres singularity

Last synced: 05 Apr 2025

https://github.com/juliacontainerization/simplecontainergenerator.jl

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

containers docker julia-language julia-package-compiler julia-packages offline singularity static-compilation

Last synced: 10 Apr 2025

https://github.com/bdusell/singularity-tutorial

Tutorial for using Singularity containers

container cuda cudnn pytorch singularity

Last synced: 09 Apr 2025

https://github.com/JuliaContainerization/SimpleContainerGenerator.jl

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

containers docker julia-language julia-package-compiler julia-packages offline singularity static-compilation

Last synced: 16 May 2025

https://github.com/connectomicslab/connectomemapper3

Connectome Mapper 3 is a BIDS App that implements full anatomical, diffusion, resting/state functional MRI, and recently EEG processing pipelines, from raw T1 / DWI / BOLD , and preprocessed EEG data to multi-resolution brain parcellation with corresponding connection matrices.

bids bids-apps bidsapp brain chuv connectome dmri docker eeg fmri parcellation pipelines python singularity

Last synced: 14 Jan 2026

https://github.com/genepi/nf-gwas

A nextflow pipeline to perform state-of-the-art genome-wide association studies.

gwas imputation nextflow regenie singularity slurm

Last synced: 02 Feb 2026

https://github.com/singularityhub/singularity-compose

orchestration for singularity containers (under development)

container-orchestration singularity singularity-compose

Last synced: 09 Aug 2025

https://github.com/singularityhub/github-ci

An example GitHub Action (CI) to build a Singularity container

container github-ci singularity singularity-ci

Last synced: 15 Apr 2025

https://github.com/PangzeCheung/SingDiffusion

[CVPR 2024] Tackling the Singularities at the Endpoints of Time Intervals in Diffusion Models

cvpr2024 diffusers diffusion-model singularity text-to-image-generation

Last synced: 28 Mar 2025

https://github.com/singularityhub/singularity-cli

streamlined singularity python client (spython) for singularity

cli client containers hacktoberfest singularity singularity-python

Last synced: 09 Apr 2025

https://github.com/bsc-wdc/compss

COMP Superscalar (COMPSs) is a framework which aims to ease the development and execution of applications for distributed infrastructures, such as Clusters, Grids and Clouds.

c distributed-computing docker hpc java pipeline-framework python singularity slurm workflow-management-system workflows

Last synced: 05 Apr 2025

https://github.com/dgruber/wfl

A Simple Way of Creating Job Workflows in Go running in Processes, Containers, Tasks, Pods, or Jobs

containers docker go golang high-throughput hpc k8s kubernetes linux macos processes singularity workflow workflow-engine

Last synced: 20 Aug 2025

https://github.com/seqeralabs/wave

On-demand containers provisioning service

containers docker kubernetes nextflow singularity

Last synced: 16 Jan 2026

https://github.com/dirkpetersen/hpc-containers

You should offer both Podman and Apptainer with name spaces on your HPC systems

apptainer containers hpc podman rootless-containers singularity

Last synced: 09 Oct 2025

https://github.com/expfactory/expfactory

software to generate a reproducible container with a battery of experiments

battery container experiment-factory experiments expfactory psychology reproducible singularity

Last synced: 03 Apr 2025

https://github.com/vsoch/scif

scientific filesystem: a filesystem organization for scientific software and metadata

container containers docker metadata organization scientific-filesystems singularity standard

Last synced: 12 Apr 2025

https://github.com/nextflow-io/nf-hack17-tutorial

Nextflow basic tutorial for newbie users

bioinformatics docker genomics nextflow singularity tutorial

Last synced: 06 May 2025

https://github.com/NVIDIA/ngc-container-environment-modules

Environment modules for NGC containers

lmod ngc singularity

Last synced: 27 Mar 2025

https://github.com/sib-swiss/containers-introduction-training

Course website "Docker and Singularity for reproducible research: getting started with containers"

containers docker dockerfile singularity teaching training tutorial

Last synced: 14 Apr 2025

https://github.com/nvidia/ngc-container-environment-modules

Environment modules for NGC containers

lmod ngc singularity

Last synced: 25 Mar 2025

https://github.com/cdcgov/tostadas

🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

azure bioinformatics conda docker genbank genetics liftoff metadata mpox ncbi nextflow nf-tower pipeline python rna-seq scicomp sequencing singularity sra vadr

Last synced: 15 Apr 2025

https://github.com/opensciencegrid/cvmfs-singularity-sync

Scripts to synchronize Singularity images to a CVMFS repository.

cvmfs singularity

Last synced: 24 Jan 2026

https://github.com/singularityhub/singularity2docker

convert a singularity image back to Docker, full circle! #containerfriends

converter docker singularity singularity-container

Last synced: 12 Sep 2025

https://github.com/pydicom/dicom-containers

singularity and Docker containers to easily get started with common dicom tools

container dcm2k dicom docker pydicom pynetdicom singularity singularity-container

Last synced: 19 Oct 2025

https://github.com/singularityhub/singularity-docker

docker base images to provide release versions of Singularity

container-friends docker singularity

Last synced: 15 Jul 2025

https://github.com/vsoch/singularity-shiny

a quick shiny server in a Singularity Container. For @griznog!

containers r shiny shiny-server singularity

Last synced: 12 Apr 2025

https://github.com/mbhall88/container_recipes

Repository with all my container recipes 👩‍🍳

bioinformatics containers docker nanopore singularity

Last synced: 28 Jun 2025

https://github.com/seqeralabs/wave-cli

Command line tool for Wave containers provisioning service

conda containers docker kubernetes singularity spack

Last synced: 29 Oct 2025

https://github.com/singularityhub/shpc-registry

A remote registry for Singularity Registry HPC 🖊️

container-recipes environment-modules lmod shpc singularity singularity-hpc

Last synced: 02 Jan 2026

https://github.com/singularityhub/sregistry-cli

Singularity Global Client for container management

client singularity singularity-container singularity-hub singularity-registry

Last synced: 11 Apr 2025

https://github.com/singularityhub/jupyter

official build specifications for jupyter

jupyter singularity

Last synced: 27 Oct 2025

https://github.com/vmikk/phylonext

A pipeline for phylogenetic diversity analysis of GBIF-mediated data

beta-diversity biodiverse docker endemism gbif nextflow phylodiversity phylogenetic-diversity r randomisations singularity

Last synced: 17 Jul 2025

https://github.com/netreconlab/hipaa-postgres

HIPAA & GDPR compliant ready Postgres Database with PostGIS and PGAuditor

carekit docker gdpr hacktoberfest healthcare hipaa parse-hipaa parsecarekit pgaudit postgis postgres postgresql singularity

Last synced: 23 Apr 2025

https://github.com/singularityhub/singularity-catalog

The Singularity Community Catalog of Singularity* recipe files.

singularity singularity-catalog singularity-container singularity-recipe

Last synced: 15 Apr 2025

https://github.com/ethanluoyc/lxm3

LXM3: XManager launch backend for HPC clusters

hpc machine-learning packaging singularity xmanager

Last synced: 06 Feb 2026

https://github.com/netreconlab/ca-server

A Certificate Authority (CA) Server written in python using fastAPI

certificate-authority certificate-signing-request certificates csr docker fastapi hacktoberfest python singularity

Last synced: 23 Apr 2025

https://github.com/onnovalkering/vscode-singularity

Provides syntax highlighting for Apptainer/Singularity definition files.

apptainer singularity syntax-highlighting vscode-extension

Last synced: 20 Oct 2025

https://github.com/singularityhub/stools

singularity container tools for continuous integration and quality assessment

ci clair containers continuous-integration qa scanning singularity singularity-containers

Last synced: 30 Jun 2025

https://github.com/bast/apptainer-conda

Local Conda environments via Apptainer.

apptainer conda containers micromamba singularity

Last synced: 08 Feb 2026

https://github.com/clowdr/clowdr

Command-line utility for iteratively developing pipelines, deploying them at scale, and sharing data and derivatives

data-science docker hpc-applications pipelines python singularity

Last synced: 14 Jan 2026

https://github.com/singularityhub/singularity-ci

example builders for Singularity images using continuous integration

builder ci continuous-integration singularity singularity-container

Last synced: 05 Oct 2025

https://github.com/vsoch/helpme

command line daemon for helping you out

command-line containers docker github helper research-tool singularity uservoice

Last synced: 16 Jul 2025

https://github.com/alan-turing-institute/ai-workflows

A collections of portable, real-world AI workflows for testing and benchmarking

ai apptainer hpc hut23 hut23-947 machine-learning singularity singularity-container

Last synced: 05 May 2025

https://github.com/singularityhub/travis-ci

an example builder to build a container with Travis CI, and push to a Singularity Registry Server (or other endpoint)

builder dropbox google-storage singularity singularity-registry singularityhub sregistry travis travis-ci

Last synced: 27 Jul 2025

https://github.com/tomeichlersmith/denv

uniformly interact with containerized environments across runners

apptainer containers developer-tools development-environment docker podman singularity

Last synced: 17 Jan 2026

https://github.com/supercontainers/isc-tutorial

ISC 2023 -- Getting Started with Containers on HPC

containers docker hpc shifter singularity singularity-container supercomputer tutorial

Last synced: 12 Apr 2025

https://github.com/ninesstack/nmesos

CLI tool to deploy to Mesos using Singularity

cli mesos singularity tool

Last synced: 12 May 2025

https://github.com/singularityhub/circle-ci

example builder for Singularity containers using Circle Continuous Integration, circle-ci

builder circle-ci singularity singularity-ci

Last synced: 11 Apr 2025

https://github.com/ebowwa/caringmind

autopilot for your life - your ai companion: a source for augmented memory, human interpreting workers, advocator, and much more

ai aiassistant anthropic claude emotions gemini-flash gpto1-mini gpto1-preview humeai ios-app o1-mini ollama openai opensource opensourceapps python singularity speech-processing swift

Last synced: 10 Apr 2025

https://github.com/pc2/jhub-hpc-interface

JupyterHub + High-Performance Computing

hpc jupyter jupyterhub singularity

Last synced: 11 Sep 2025

https://github.com/singularityhub/registry

testing an idea for a static container registry (under development)

containers singularity static-registry storage

Last synced: 11 Apr 2025

https://github.com/singularityhub/singularity.lang

xml syntax file for formatting Singularity recipes in gedit

gedit singularity singularity-container syntax-highlighting ubuntu

Last synced: 15 Apr 2025

https://github.com/singularityhub/docker

small docker tools for Singularity containers

base docker docker2singularity singularity

Last synced: 08 Oct 2025

https://github.com/netreconlab/hipaa-mongo

HIPAA & GDPR compliant ready Mongo Database with percona-server.

docker encryption gdpr hacktoberfest healthcare hipaa mongo mongodb parse-hipaa parsecarekit percona-server singularity

Last synced: 23 Apr 2025

https://github.com/ncar-xdev/repo2apptainer

Repo2apptainer: Wrapper around repo2docker producing Jupyter enabled Apptainer/Singularity images.

apptainer hpc-applications jupyter singularity singularity-container

Last synced: 14 Apr 2025

https://github.com/cokelaer/damona

singularity environment manager (application to NGS and bioinformatics)

bioinformatics conda manager ngs singularity

Last synced: 15 Apr 2025

https://github.com/vsoch/sifweb

Testing loading a SIF into a browser using Web Assembly (under development)

golang sif singularity web-assembly

Last synced: 12 Aug 2025

https://github.com/singularityhub/singularity-compose-simple

One instance example with singularity-compose

orchestration singularity singularity-compose

Last synced: 11 Apr 2025

https://github.com/telatin/singularities

Scripts and notes for singularity containers used for bioinformatics analyses

bioinformatics containers singularity singularity-containers

Last synced: 30 Oct 2025

https://github.com/singularityhub/paraview-visualizer

Singularity container recipes to run the paraview visualizer

paraview singularity singularity-container visualizer

Last synced: 08 Jan 2026

https://github.com/singularityhub/paraviewweb-apache

Testing running an apache server with paraview in Singularity

apache2 docker paraview paraviewweb singularity

Last synced: 11 Apr 2025

https://github.com/openomics/nanite

A streamlined Oxford Nanopore Viral Metagenomics Pipeline

annotation assembly classification pathogen-surveillance pipeline singularity slim snakemake viral-metagenomics

Last synced: 18 Jan 2026

https://github.com/coderefinery/hpc-containers

Lesson about containers for HPC with focus on Apptainer.

apptainer hpc openscience singularity

Last synced: 30 Jan 2026

https://github.com/saravanabalagi/singularity_tensorflow

Singularity tensorflow containers for research and development

development-platform singularity singularity-container tensorflow

Last synced: 06 Jan 2026

https://github.com/bast/apptainer-venv

Fast Python virtual environments on Apptainer.

apptainer singularity venv

Last synced: 11 Sep 2025

https://github.com/vsoch/singularity-nginx

web application to serve (simple) singularity images

nginx singularity singularity-container singularity-containers

Last synced: 04 Jul 2025

https://github.com/lumc/hutspot

Multisample DNAseq variant calling pipeline for use in diagnostics

biocontainers bioinformatics ngs-analysis ngs-pipeline singularity snakemake snakemake-workflows

Last synced: 26 Jul 2025

https://github.com/bencardoen/singularity_julia

Template definition file for Singularity RO containers with Julia and user package embedded.

container definition-file hpc-clusters julia julia-language singularity singularity-container

Last synced: 07 Sep 2025

https://github.com/pydicom/pydicom.github.io

getting started with dicom in python

api dicom docker json python singularity singularity-container

Last synced: 06 Apr 2025

https://github.com/sci-f/apps

Modular application recipes for the Scientific Filesystem (SCIF)

apps open-science sci-f scientific-containers singularity singularity-container singularity-containers

Last synced: 30 Mar 2025

https://github.com/mbhall88/eipp-2019-singularity

Singularity group project for EIPP 2019

bioinformatics containers embl embl-ebi phd singularity

Last synced: 10 Apr 2025

https://github.com/singularityhub/singularityhub-archive

Searchable archive for Singularity Hub (2016-2021)

singularity singularity-hub singularityhub

Last synced: 09 Aug 2025