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OpenDataScience.md

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NB :: OpenScience listings are in the software section. Not all the DB's are freely available.

SOFTWARE - Open Science

  • aristotle-metadata-registry :: Aristotle-MDR is an open-source metadata registry as laid out by the requirements of the ISO/IEC 11179 specification.
  • camlipy :: The unofficial Python client for Camlistore. Documentation.
  • caffe-oxford102 :: Caffe CNNs for the Oxford 102 flower dataset.
  • datacleaner :: A Python tool that automatically cleans data sets and readies them for analysis.
  • eggo :: Ready-to-go Parquet-formatted public Genomics datasets.
  • data-projects :: Scripts and data for various Vox Media stories and news projects.
  • scrapi :: A data processing pipeline that schedules and runs content harvesters, normalizes their data, and outputs that normalized data to a variety of output streams.
  • simmetrica :: Lightweight framework for collecting and aggregating event metrics as timeseries data.

OpenScience - OpenResearch

  • ActivePapers :: A tool for working with executable papers, which combine data, code, and documentation in single-file packages, suitable for publication as supplementary material or on sites such as figshare.
  • pytextbooks :: Python 3.7 program to search Library Genesis via ISBN and fetch direct download links.
  • Sumatra :: is a tool for managing and tracking projects based on numerical simulation and/or analysis, with the aim of supporting reproducible research. It can be thought of as an automated electronic lab notebook for computational projects.

ACTUARIAL SCIENCE

Econometrics

Finance

ASTRONOMY

AstroPhysics

  • sndatasets :: Download and normalize published supernova photometric data.

BIOLOGY

Genome

  • ChromosomeMappings :: This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  • DataLad :: aims to provide access to scientific data available from various sources (e.g. lab or consortium web-sites such as Human connectome; data sharing portals such as OpenFMRI and CRCNS) through a single convenient interface and integrated with your software package managers (such as APT in Debian). Although initially targeting neuroimaging and neuroscience data in general, it will not be limited by the domain and a wide range of contributions are welcome. Get the source code on github.
  • Download Gene data (via ftp) which integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
  • RefSeqGene defines genomic sequences to be used as reference standards for well-characterized genes and is part of the Locus Reference Genomic (LRG) Project.
  • The 3000 Rice Genomes Project Data, GigaScience Database and and [blog article in BMC](See also: http://blogs.biomedcentral.com/gigablog/2014/05/29/publish-data-fight-world-hunger/).
  • NCBI's Sequence Read Archive (SRA)
  • Saccharomyces Genome Database

Worms, Virus, Nematodes

  • The central MANUELA database, a.k.a. _M_eiobenthic _A_nd _N_ematode biodiversity _U_nravelling _E_cological and _L_atitudinal _A_spects database is compiled by capturing the available data on meiobenthos on a broad European scale.
  • Nematodes DB from the Blaxter Lab, based on analyses of ESTs or GSSs from "neglected taxa" using the PartiGene suite of programmes.
  • Nematode Transcriptome Analyses.
  • WormBase :: Species genomes with standardized sequence and annotations.

Genetics-Medicine

  • NCBI Resources for Genetics and Medicine.
  • HIV-1, Human Protein Interaction Database :: A database of known interactions of HIV-1 proteins with proteins from human hosts. It provides annotated bibliographies of published reports of protein interactions, with links to the corresponding PubMed records and sequence data.

Medical Imaging

Molecular Biology

  • SASBDB ::Small Angle Scattering Biological Data Bank.

Neuroscience

  • Codeneuro-Datasets :: Shared data sets for collaborating, testing, and benchmarking.
  • Neuroscience Databases list.
  • NeuroVault :: A web database for human brain statistical maps, atlases and parcellation maps that researchers can publicly store and share their unthresholded statistical maps produced by MRI and PET studies. Source code.
  • OpenfMRI.org :: A project dedicated to the free and open sharing of functional magnetic resonance imaging (fMRI) datasets, including raw data.

Pharma

CHEMISTRY

Crystallography

DATA

DATA-DataScience

DATA-General

  • awesome-public-datasets :: A collection of large-scale public datasets on the Internet.
  • common-workflow-language :: Repository for CWL Specfications.
  • datasets :: Original data or Aggregated / cleaned / restructured existing datasets. Released under Creative Commons Attribution-ShareAlike 4.0 International License.
  • Freebase :: A community-curated database of well-known people, places, and things.
  • Wikidata :: A free linked database that acts as central storage for the structured data of its Wikimedia sister projects including Wikipedia, Wikivoyage, Wikisource, and others, that can be read and edited by both humans and machines.
  • World Bank Open Data :: Free and open access to data about development in countries around the globe.

DATA-Research

  • Registry of Research Data Repositories :: provides researchers, funding organisations, libraries and publishers with over 1,000 listed research data repositories from all over the world making it the largest and most comprehensive online catalog of research data repositories on the web.

DATA-Scientific

Earth Science

Gender Violence

MACHINE LEARNING

  • Machine learning datasets :: A list of the biggest machine learning datasets from across the web.
  • Celeb-DF :: A New Dataset for DeepFake Forensics that contains real and DeepFake synthesized videos having similar visual quality on par with those circulated online. The Celeb-DF dataset includes 408 original videos collected from YouTube with subjects of different ages, ethic groups and genders, and 795 DeepFake videos synthesized from these real videos.
  • UCI Machine Learning Repository

Learning Resources

MATH

  • Juliaset.jl :: Generate Julia set images. This is created primarily as an example for JuliaBox hosted REST APIs.

PHYSICS

VIDEO

  • Databrary :: A video data library for developmental science. Share videos, audio files, and related metadata. The source codes on github.