Work with data/code

Work with code

  • CDE Tool – Deploy and run your Linux programs on other machines without any installation or configuration.
  • Dexy – Helps your code to speak for itself with beautiful syntax highlighting.
  • GitLab – A git repository management, code reviews, issue tracking and wiki's all in one platform.
  • iPython notebook – Interactive computational environment that allows code execution, text, mathematics, plots, and rich media.
  • Kepler – Helps create, execute, and share models and analyses across scientific and engineering disciplines.
  • Mercurial – Control management tool with distributed source, giving each developer a local copy of the development history.
  • nanoHUB – Centralized platform for computational nanotechnology research, education, and collaboration.
  • ROpenSci – Packages that allow access to data repositories through the R statistical programming environment.
  • Sweave – Allows to embed the R code for complete data analyses in latex documents
  • System in Cloud – Platform, enabling clients to rapidly draw and execute data-flow diagram that run in cloud.

Work with data

  • Benchling – Life science data management and collaboration platform.
  • Castor EDC - User friendly and affordable online data collection for medical research.
  • Dat Data - Open source, decentralized data tool for distributing datasets small and large.
  • Galaxy Project – Web-based platform for data intensive biomedical research.
  • GenePattern – Genomic analysis platform that provides access to hundreds of genomics tools.
  • GenomeCompiler – Genetic design platform allowing researchers to manipulate and design everything from single genes to entire genomes.
  • InSIlico DB – Genomics made possible for biologists without programming.
  • Kaggle – Platform for data prediction competitions.
  • Kitware – Advanced software solutions and services for data intensive R&D
  • mloss – Machine learning open source software.
  • MyExperiment – Share workflows and in silico experiments
  • nanoHUB – Centralized platform for computational nanotechnology research, education, and collaboration.
  • Ovation - Simplifies your scientific life from sample tracking for startup labs to data management.
  • PCR Drive - Free platform that supports researchers in all their PCR-related processes.
  • Pegasus – Platform that help workflow-based applications execute.
  • Plotly – Online tool to graph and share data.
  • Riffyn - Cloud software for visual, collaborative, reproducible innovation.
  • ROpenSci – Packages that allow access to data repositories through the R statistical programming environment.
  • Statcrunch – Provides data analysis via the Web.
  • Sumatra – Automated electronic lab notebook for computational projects
  • SURF In context – Navigate through RDF relations in a smooth and understandable way.
  • Sweave – Allows to embed the R code for complete data analyses in latex documents.
  • System in Cloud – Platform, enabling clients to rapidly draw and execute data-flow diagram that run in cloud.
  • Tableau – Easily and quickly analyze and present data and share insights.
  • Taverna – A suite of tools used to design and execute scientific workflows.
  • VisTrails – Scientific workflow and provenance management system that supports data exploration and visualization.
  • Wakari – Web-based python data analysis.
  • WebPlotDigitizer – Web based tool to extract data from plots, images, and maps. (blog post)
  • Wings – Semantic workflow system that assists scientists with the design of computational experiments.
  • Wolfram Alpha – Web-based tools for scientific calculations.
  • World Map – Allows users to explore, visualize, edit, collaborate with, and publish geospatial information.