singularity-containers

There are 2 repositories under singularity-containers topic.

• nextflow

  nextflow-io / nextflow

  A DSL for data-driven computational pipelines

  bioinformaticsworkflow-enginepipelinepipeline-frameworknextflowcloudgroovysgeslurmawsdockersingularityhpcsingularity-containersreproducible-sciencereproducible-researchdataflowhello
  Language:Groovy 3202
• sregistry

  singularityhub / sregistry

  server for storage and management of singularity images

  singularityhubsingularitysingularity-containerscontainersmanagementregistry
  Language:JavaScript 105

• singularityhub / singularityhub.github.io

  Container tools for scientific computing! Docs at https://singularityhub.github.io/singularityhub-docs

  singularity-containerscontainercontainersregistrywebsitedocumentationhub
  Language:HTML 69

• singularityhub / singularity-python

  command line tool for working with singularity hub and singularity containers

  containercontainerssingularity-containershpclinux
  Language:Python 42

• comorment / containers

  CoMorMent-Containers

  containersgwaspolygenic-risk-scoressingularity-containers
  Language:R 30

• NIH-HPC / singularity-examples

  example singularity definition files and demos

  singularity-containers
  Language:Shell 27

• intel / HPC-containers-from-Intel

  Intel HPC Containers using Singularity

  hpcclustersingularity-containerscloud
  19

• c3se / containers

  The main platform for sharing all the information about AI/HPC-related containers at C3SE. See also the included tutorial to get started.

  singularity-containersdockerhpc
  18

• sci-f / sci-f.github.io

  The Scientific Filesystem Specification and Documentation

  competitivecontainerssingularitysingularity-containersreproducibilityscience
  Language:CSS 13

• singularityhub / stools

  singularity container tools for continuous integration and quality assessment

  singularitycontainerssingularity-containersqascanningcicontinuous-integrationclair
  Language:Python 10

• BU-ISCIII / nextflow-scif

  This is a demo about how to develop and deploy a pipeline using nextflow, scif, a container (Singularity and Docker) and its posterior deployment.

  docker-containernextflowsingularityrecipesingularity-containersnextflow-scifnextflow-pipelinesdocker-imagescif-recipenextflow-workflow
  Language:HTML 9

• CDAC-SSDG / hpc-containers

  This repo holds the containers for HPC applications used and deployed by CDAC SSDG. It is a single point of contact for the container related issues or support required

  aarch64armhpctauc-dacgcchybrid-applicationmpinsmprofilersssdgsingularity-containers
  9

• jlboat / BioinfoContainers

  Various Singularity recipes I've used to generate containers

  sigularitysingularity-containerssingularityhubbioinformatics
  7

• supercontainers / sc19-tutorial

  Getting Started with Containers on HPC

  tutorialcontainershpcsingularityshiftersingularity-containerscontainerization
  Language:C 6

• QuentinLetourneur / Let-it-bin

  Optimize workflow for binning metagenomic short reads from multiple samples

  nextflowbinningmetagenomic-analysissingularity-containers
  Language:Nextflow 5
• singularities

  telatin / singularities

  Scripts and notes for singularity containers used for bioinformatics analyses

  bioinformaticssingularitycontainerssingularity-containers
  Language:Perl 5

• asadprodhan / sangerFlow

  A bioinformatics pipeline that automates the Sanger amplicon sequencing data analysis of thousands of samples in parallel.

  nextflow-pipelinesingularity-containers
  Language:Nextflow 4

• vsoch / singularity-nginx

  web application to serve (simple) singularity images

  singularitysingularity-containersnginxsingularity-container
  Language:Python 4

• kinow / cylc-singularity

  Singularity containers for Cylc

  singularitycylcdockercontainersworkflowschedulersingularity-containersingularity-containers
  Language:Roff 3

• sci-f / apps

  Modular application recipes for the Scientific Filesystem (SCIF)

  singularitysingularity-containerssingularity-containeropen-sciencescientific-containersappssci-f
  Language:CSS 3

• JFresnedo / AmpSeq

  A framework for semi-automated analysis of Amplicon Sequencing data

  bioinformaticsbioinformatics-pipelinebioinformatics-scriptsbioinformatics-containersbioinformatics-datasingularity-containerssingularity-hub
  Language:Perl 2

• manuparra / cc2122

  Cloud computing How-To

  cloudcloudcomputigdockerkubernetessingularity-containersminikube-cluster
  Language:Shell 2

• PSU-ICDS / containers

  A collection of Dockerfiles and Singularity definition files used to build the containers that are used on the Roar cluster!

  singularity-containershpcdockerroar-supercomputerapptainer
  Language:Dockerfile 2

• singularityhub / builders

  these are the build scripts run by the robot builders, chosen by the user for a given build

  containertoolssingularitybuildersingularity-containers
  Language:CSS 2

• singularityhub / singularity-tunel

  command line tool for general HPC functions using Singularity containers

  singularitysingularity-containersingularity-containerscontainer-managementflaskpythoncontainers
  Language:CSS 2

• tensoralex / apptainer-fastai-container

  A short tutorial on building an Apptainer image for fast.ai course/book

  apptainerfastaimachine-learningsingularity-containersfastai-container
  Language:Shell 2

• chipsneutrino / chips-env

  Repository containing the standardised CHIPS software environments and associated containers.

  singularity-containersenvironmentdocker
  Language:Python 1

• CHRUdeLille / vep_containers

  VEP environments containerized for singularity

  singularity-containerssingularity-hubensembl-veprecipessingularity
  Language:Shell 1

• Grelot / bioinfo_singularity_recipes

  A collection of singularity recipies for bioinformatic pipelines.

  singularity-containerssingularitysingularity-hubsingularity-containerobitoolsrednametabarcodingbioinformatics
  Language:Shell 1

• JBris / auto-apsim-singularity

  Automatically build Apptainer images for APSIM

  apptainerapptainer-containerapsimapsimxautomationsingularitysingularity-containersingularity-containers
  Language:Shell 1

• JBris / install_singularity

  Install Singularity to your Debian/Ubuntu system

  gogolangsingularitysingularity-containersingularity-containerssingularity-recipeapptainerdebiandebian-packagesubuntuapptainer-container
  Language:Shell 1

• maxulysse / Presentations

  My presentations made with compile-latex

  nextflowsingularity-containersdockerbeamerlatex
  Language:TeX 1

• pranjaldhole / singularity-cellprofiler

  Singularity-based linux container with CellProfiler 4 pre-installed into it.

  singularity-containerssingularity-hubcellprofilersingularitycontainerstutorial-sourcecode
  Language:Shell 1

• singularityware / eb-singularity

  Stuff related to integrating EasyBuild & Singularity

  easy-buildcontainerssingularitysingularity-containershpc
  1

• SouthGreenPlatform / singularityRecipeFiles

  This repository provides a series of Singularity recipe files used to easily deploy numerous bioinformatics softwares through containers.All these Singularity recipes are ready to be used by the bioinformatics community and have been developed to be integrated into the workflow manager TOGGLe http://toggle.southgreen.fr.

  recipe-filessingularity-containers
  1

• PoliMI-HPC-E-notes-projects-AndreVale69 / SE4HPC_project_part2

  Second (part 2) university project of the Software Engineering for HPC course. Created a CI/CD github pipeline to: test an application (1), containerize the application using Singularity (2), send the Singularity build to the Galileo100 supercomputer (3), and make the results from the cluster available (4).

  cppdevopsgoogletesthpc-applicationshpc-clustersmpipolimipolimi-projectssingularitysingularity-containersslurmslurm-clustersoftware-engineeringgalileo100polimi-projectuniversity-project
  Language:C++ 0