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Learn how GA4GH helps expand responsible genomic data use to benefit human health.
htsget
Allows users to download read and variation data for subsections of the genome
With great advances in sequencing technologies, research and healthcare settings are generating more data than ever before. The ability to share and access these large volumes of data to enable new scientific discoveries, however, remains a challenge. Today, this is largely achieved by transferring and copying large files between two computers, resulting in a slow and resource-intensive process that is unscalable. Maintained by the GA4GH Large Scale Genomics (LSG) Work Stream, the htsget API enables faster retrieval of read and variation data by allowing users to download subsections of the genome in which they are interested.
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Benefits
- Allows users to download only parts of a genome of interest
- Enables faster and more efficient access to data
Target users
Researchers
Image summary: htsget helps researchers “stream” portions of data from a genome, rather than downloading the entire file.
THEME
CATEGORY
TYPE
STATUS
Work Stream
LATEST VERSION
Product Lead
- Mike Lin
Staff Contact
Tools & Platforms
Publications
Community resources
Dive deeper into this product! Sharing large volumes of genomic data across different locations can enable the discovery of new genetic associations and provide supporting evidence for new findings. The htsget API provides a secure, consistent protocol for researchers to access data stored in different repositories — whether based in big public clouds or in more traditional infrastructure. Moving away from a file-centric approach to data sharing, htsget allows for a more flexible, efficient, and specific data access approach — allowing users to download subsections of the genome instead of the entire file.
Date
Version
24 May 2022
13 May 2019
23 Jan 2019
1 Jun 2018
10 Oct 2017
Date
Title
15 Dec 2023
14 Sep 2023
11 Mar 2023
12 Dec 2020
All of Us Research Program
Australian Genomics
Canadian Distributed Infrastructure for Genomics (CanDIG)
European Joint Programme on Rare Disease (EJP RD)
European Genome-phenome Archive (EGA)
ELIXIR Beacon
European Genome-phenome Archive (EGA), EMBL's European Bioinformatics Institute (EBI), Centre for Genomic Regulation
Genomics England
Genomics England
Don't see your name? Get in touch:
- Jeremy Adams
DNAstack - Edmon Begoli
Oak Ridge National Laboratory (ORNL) - Robert Davies
Wellcome Sanger Institute (WSI) - Mallory Freeberg
EMBL's European Bioinformatics Institute (EBI) - David Glazer
Verily - Oliver Hofmann
University of Melbourne Centre for Cancer Research - David Jackson
Wellcome Sanger Institute (WSI) - Jerome Kelleher
University of Oxford - Anders Leung
Independent Contributor - Mike Lin
Independent Contributor - John Marshall
University of Glasgow - Shaikh Farhan Rashid
University Health Network, Canadian Distributed Infrastructure for Genomics (CanDIG) - Augusto Rendon
Genomics England - Roman Valls Guimera
University of Melbourne Centre for Cancer Research
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