Revision as of 08:35, 24 September 2015

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Assorted (offline and online) tools

• Collective Knowledge - preserve (with distributed ID), organize, desribe, share and reuse your code and data via GitHub
  • CK-based interactive article
  • PLDI'15 artifact converted to CK format
  • Artifact repository for UK PAMELA project
  • Artifact repository for EU FP7 CARP project
  • Example of benchmarks shared in CK format
  • Example of data sets shared in CK format
  • Examples of CK repositories shared as zip files
• Docker tool (pack, ship and run applications as a lightweight container)
• ReproZip automatically packing experiments (related article)
• CARE tool from STMicroelectronics (Comprehensive Archiver for Reproducible Execution)
• RR (Mozilla project: records nondeterministic executions and debugs them deterministically)
• CDE tool (automatically create portable Linux applications with all dependencies)
• IPython Notebook (a web-based interactive computational environment where you can combine code execution, text, mathematics, plots and rich media into a single document)
• R-studio (Open source and enterprise-ready professional software for R)
• Codelab (an experimental platform for collaboration and competition)
• Grid5000 large-scale and versatile testbed for experiment-driven research in all areas of computer science, with a focus on parallel and distributed computing including Cloud, HPC and Big Data
• FigShare (managing research in a cloud)
• RunMyCode (online workflows)
• AptLab (online workflows)
• Taverna (designing and executing workflows)
• BOINC (open-source software for volunteer computing and grid computing)
• NGS pipelines (integrates pipelines and user interfaces to help biologists to analyse data outputed from biological applications such as RNAseq, sRNAseq, ChipSeq, BS-seq)
• Skoll (A process & Infrastructure for Distributed, continuous Quality assurance)
• NEPI (Simplifying network experimentation)
• Burrito (Rethinking the Electronic Lab Notebook)
  open source cTuning technology (crowdsource auto-tuning and combine with machine learning using big data, predictive analytics and crowdsourcing) (2006-cur.)
• Collective Mind technology (towards collaborative, systematic and reproducible computer engineering using big data, predictive analytics and collective intelligence) (2011-2014)
• OCCAM project - open curation for computer architecture modeling
• Org mode - keeping notes, maintaining TODO lists, planning projects, and authoring documents with a fast and effective plain-text system