NYGC NCBI-style bioinformatics hackathon August 6-8, 2018


From August 6-8, 2018, the NCBI will help with a data science hackathon at the New York Genome Center in Manhattan. The hackathon will focus on genomics as well as general Data Science. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

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Summer 2018 NIH Data Hackathon July 23-25, 2018


From July 23rd to 25th, 2018, NCBI will host a data science hackathon on the NIH campus. This hackathon will focus on genomics as well as general Data Science analyses including text, image and sequence processing. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to the NIH campus in Bethesda, Maryland.

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Tour the NCBI’s Genome Data Viewer, Bookshelf, Pathogen Isolates Detection Browser and other resources on YouTube


Several of the latest videos on the NCBI YouTube channel highlight NCBI resources. Subscribe to the channel to see all our new videos.

NCBI’s Genome Data Viewer – Introducing the BLAST Widget

A brief introduction into how the BLAST widget, a new addition to the Genome Data Viewer, helps you see your BLAST results in the context of assembled genome sequences.

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NIH Data Science Collaborative Hackathon April 16 – 18, 2018


The NCBI will assist with a data science hackathon to take place on the NIH Campus in Bethesda, Maryland, from April 16-18, 2018.

The hackathon will focus on tools for advanced analysis of biomedical datasets including text, images, next generation sequencing data, proteomics, and metadata. Many individuals who attend these events have already engaged in the use of large datasets or in the development of informatics tools, code, or pipelines; however, researchers who are in the earlier stages of their data science journey, including students and postdocs are also encouraged to apply. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to Bethesda, Maryland.

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NCBI-UCSC Genomics Hackathon April 2-4, 2018


From April 2 -4, 2018, the NCBI will help with a bioinformatics hackathon in Northern California hosted by the University of California, Santa Cruz (UCSC)!  The hackathon will focus on advanced bioinformatics analysis of next generation sequencing data, proteomics, and metadata.

This event is for researchers, including students and postdocs, who have already engaged in the use of bioinformatics data or in the development of pipelines for bioinformatics analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to UCSC.

Working groups of five to six individuals will be formed into five to eight teams.  These teams will build pipelines and tools to analyze large datasets within a cloud infrastructure.  Potential subjects for this iteration include:

  • Developing a framework for nesting containerized bioinformatics workflows in cloud infrastructure.
  • Extending the GA4GH API to map fastq files
  • Machine learning pipelines for germline rare variants linked to phenotypes
  • A simple, open-source mapper for nanopore data
  • An automated pipeline for named entity recognition from biomedical literature

Please see the application form for more details and additional projects. Continue reading

North Carolina Research Triangle Hackathon March 12-14, 2018


The UNC Curriculum in Bioinformatics and Computational Biology and NCBI will host a data science hackathon from March 12-14, 2018 on the campus of the University of North Carolina at Chapel Hill. Projects addressed during the hackathon will involve general bioinformatics and genomic analyses in addition to text, image, and sequence processing.

This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects may involve other non-scientific developers, mathematicians, or librarians.

To be considered for the event, you must apply and be able to travel to the UNC campus in Chapel Hill (see details below).  Applications are due Monday, February 12th, 2017 by 11:59 pm ET.

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Feb 7 webinar “How to Run an NCBI-style Hackathon at Your Institution”


On Wednesday, February 7, 2018, NCBI will present a webinar that will show you how to plan and run an NCBI-style hackathon at your own institution.

Date & time: Wed, Feb 7, 2018 12:00 PM – 1:00 PM EST

Register here: http://bit.ly/2zYU7Kp

NCBI organizes 2-3-day hackathons at sites throughout the United States. In these events, participants work in small collaborative groups on workflows, scripts or applications to create bioinformatic solutions to problems in fields such as text mining, next-gen sequence analysis, medical informatics, and many others. Code from Hackathon projects is available on the public NCBI Hackathon GitHub site.

After registering, you will receive a confirmation email with information about attending the webinar. A few days after the live presentation, you can view the recording on the NCBI YouTube channel. You can learn about future webinars on the Webinars and Courses page.

NIH Data Hackathon on campus – January 22-24, 2018


From January 22-24, 2018, the NCBI will help with a data science hackathon on the NIH campus in Bethesda, MD. The hackathon will focus on general data science analyses, including text, image and sequence processing. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to the NIH campus (see below).  Applications are due Friday, December 22nd, 2017 by 9 pm EST.

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