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nextflow

nextflow-io /nextflow

A DSL for data-driven computational pipelines

docker groovy hello aws cloud bioinformatics pipeline nextflow hpc reproducible-research workflow-engine slurm pipeline-framework sge singularity reproducible-science dataflow singularity-containers

UpdatedDec 17, 2025
Groovy

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.

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

UpdatedOct 10, 2022
Go

apptainer /apptainer

Apptainer: Application containers for Linux

linux science hpc containers singularity singularity-container rootless-containers apptainer

UpdatedDec 16, 2025
Go

plip

pharmai /plip

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Schake, Bolz, et al. (2025),https://doi.org/10.1093/nar/gkaf361

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

UpdatedOct 30, 2025
Python

NVIDIA /hpc-container-maker

HPC Container Maker

docker hpc containers singularity

UpdatedDec 17, 2025
Python

glotzerlab /hoomd-blue

Molecular dynamics and Monte Carlo soft matter simulation on GPUs.

python docker simulation gpu cuda molecular-dynamics singularity monte-carlo-simulation particle-system conda-forge hard-particle hoomd-blue

UpdatedDec 16, 2025
C++

getpopper /popper

Container-native task automation engine.

docker cli devops containers singularity reproducibility workflows automation-engine sciops podman

UpdatedMar 29, 2022
Python

singularityhub /docker2singularity

A docker image for converting docker images to singularity images.

docker docker-image singularity singularity-images

UpdatedJul 30, 2024
Shell

Azure /batch-shipyard

Simplify HPC and Batch workloads on Azure

docker serverless hpc azure containers gpu mpi slurm nfs singularity azure-batch azure-functions glusterfs rdma infiniband batch-processing windows-containers

UpdatedMar 20, 2023
Python

StaPH-B /docker-builds

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

docker dockerfiles bioinformatics containers singularity

UpdatedDec 17, 2025
Dockerfile

x11vnc /x11vnc-desktop

Docker/Singularity image for Ubuntu with X11 and VNC

docker html5 ubuntu websocket x11 singularity novnc vnc

UpdatedJul 2, 2024
Python

Sarek

SciLifeLab /Sarek

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

docker workflow bioinformatics pipeline genomics nextflow cancer somatic-variants reproducible-research containers next-generation-sequencing singularity reproducible-science somatic germline germline-variants

UpdatedJan 27, 2020
Nextflow

singularity-hpc

singularityhub /singularity-hpc

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

hpc containers singularity reproducibility lmod

UpdatedDec 13, 2025
Python

bdusell /singularity-tutorial

Tutorial for using Singularity containers

container cuda singularity pytorch cudnn

UpdatedOct 1, 2020

sylabs /wlm-operator

Singularity implementation of k8s operator for interacting with SLURM.

kubernetes hpc slurm singularity k8s kubernetes-operator

UpdatedDec 29, 2020
Go

sylabs /singularity-cri

The Singularity implementation of the Kubernetes Container Runtime Interface

kubernetes hpc containers singularity cri singularity-cri

UpdatedDec 29, 2020
Go

biocorecrg /master_of_pores

Nextflow pipeline for analysis of direct RNA Nanopore reads

docker nextflow singularity nanopore-sequencing nextflow-pipeline nanopore-analysis-pipeline

UpdatedNov 21, 2025
Nextflow

netreconlab /parse-hipaa

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

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

UpdatedDec 15, 2025
JavaScript

sregistry

singularityhub /sregistry

server for storage and management of singularity images

registry containers management singularity singularity-containers singularityhub

UpdatedJul 2, 2024
JavaScript

JuliaContainerization /SimpleContainerGenerator.jl

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

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

UpdatedDec 25, 2021
Julia

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