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The 2020 Bioinformatics Community Conference brings together the Bioinformatics Open Source Conference (BOSC) and the Galaxy Community Conference into a single event featuring training, a meeting, and a CollaborationFest. Events run from July 17 through July 25, and is held in both the eastern and western hemispheres.

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Sunday, July 19 • 13:00 - 13:45
P1-10: : BLAST in a container 🍐

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➞ Abstract

This poster will be presented live at BCC West.

Tom Madden, Christiam Camacho, Yuri Merezhuk, Yan Raytselis
National Center for Biotechnology Information, National Library of  Medicine, National Institutes of Health.  Email: madden@ncbi.nlm.nih.gov
Project Website: https://github.com/ncbi/blast_plus_docs
Source Codehttps://github.com/ncbi/docker/tree/master/blast
License: Public Domain
The Basic Local Alignment Search Tool (BLAST) is a very popular application for searching and aligning DNA and protein sequences.  BLAST is  widely used in many different environments and pipelines.  In order to support these use cases better, we are now making a containerized version of BLAST, using Docker, available.  This approach offers some  advantages including a reproducible run-time environment and the ability to work with bioinformatics workflow languages such as CWL.  Additionally, we are staging BLAST databases on some cloud providers, facilitating the use of these resources on the cloud.  We discuss the advantages of a containerized version of BLAST and show examples using the containers we provide.  
Additionally, we discuss work in progress on a Kubernetes based system to start our containerized version of BLAST on multiple machines in order to handle large search sets.
This research was supported by the Intramural Research Program of the National Library of Medicine, National Institutes of Health.

avatar for Tom Madden

Tom Madden

Team Lead for BLAST at the NCBI/NLM/NIH

Sunday July 19, 2020 13:00 - 13:45 EDT