|
Common Workflow Language
The Common Workflow Language (CWL) is a standard for describing computational data-analysis workflows. Development of CWL is focused particularly on serving the data-intensive sciences, such as Bioinformatics, Medical Imaging, Astronomy, Physics, and Chemistry. A key goal of the CWL is to allow the creation of a workflow that is portable and thus may be run reproducibly in different computational environments. The CWL originated from discussions in 2014 betweePeter Amstutz an Michael R. Crusoe (at that time their respective affiliations were: [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
BioCompute Object
The BioCompute Object (BCO) Project is a community-driven initiative to build a framework for standardizing and sharing computations and analyses generated from High-throughput sequencing (HTS -- also referred to as next-generation sequencing or massively parallel sequencing). The project has since beestandardizedas IEEE 2791-2020, and the project files are maintained in aopen source repository ThJuly 22nd, 2020 editionof the Federal Register announced that the FDA now supports the use of BioCompute (officially known as IEEE 2791-2020) in regulatory submissions, and the inclusion of the standard in the Data Standards Catalog for the submission of HTS data iNDAs, ANDAs, BLAs, and INDsto CBER, CDER, and CFSAN. Originally started as a collaborative contract between the George Washington University and the Food and Drug Administration, the project has grown to include over 20 universities, biotechnology companies, public-private partnerships and pharmaceutical companies including ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Galaxy (computational Biology)
Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming or systems administration experience. Although it was initially developed for genomics research, it is largely domain agnostic and is now used as a general bioinformatics workflow management system. Functionality Galaxy is a scientific workflow system. These systems provide a means to build multi-step computational analyses akin to a recipe. They typically provide a graphical user interface for specifying what data to operate on, what steps to take, and what order to do them in. Galaxy is also a data integration platform for biological data. It supports data uploads from the user's computer, by URL, and directly from many online resources (such as the UCSC Genome Browser, BioMart and InterMine). Galaxy supports a range of widely used biological data ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Michigan State University
Michigan State University (Michigan State, MSU) is a public university, public Land-grant university, land-grant research university in East Lansing, Michigan. It was founded in 1855 as the Agricultural College of the State of Michigan, the first of its kind in the United States. It is considered a Public Ivy, or a public institution which offers an academic experience similar to that of an Ivy League university. After the introduction of the Morrill Land-Grant Acts, Morrill Act in 1862, the state designated the college a land-grant institution in 1863, making it the first of the land-grant colleges in the United States. The college became coeducational in 1870. In 1955, the state officially made the college a university, and the current name, Michigan State University, was adopted in 1964. Today, Michigan State has the largest undergraduate enrollment among Michigan's colleges and universities and approximately 634,300 living alums worldwide. The university is a member of the ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Open Bioinformatics Foundation
The Open Bioinformatics Foundation is a non-profit, volunteer-run organization focused on supporting open source programming in bioinformatics. The mission of the foundation is to support the development of open source toolkits for bioinformatics, organise developer-centric hackathon events and generally assist in the development and promotion of open source software development in the life sciences. The foundation also organises and runs the annual Bioinformatics Open Source Conference, a satellite meeting of the Intelligent Systems for Molecular Biology conference. The foundation participates in the Google Summer of Code, acting as an umbrella organisation for individual bioinformatics-related projects. The Open Bioinformatics Foundation was started in 2001, arising from the BioJava, BioPerl and BioPython projects. A formal membership for the foundation was created in 2005. In October 2012, the foundation began an association with Software in the Public Interest (SPI), a US-base ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Apache Airflow
Apache Airflow is an open-source workflow management platform for data engineering pipelines. It started at Airbnb in October 2014 as a solution to manage the company's increasingly complex workflows. Creating Airflow allowed Airbnb to programmatically author and schedule their workflows and monitor them via the built-in Airflow user interface. From the beginning, the project was made open source, becoming an Apache Incubator project in March 2016 and a top-level Apache Software Foundation project in January 2019. Airflow is written in Python, and workflows are created via Python scripts. Airflow is designed under the principle of "configuration as code". While other "configuration as code" workflow platforms exist using markup languages like XML, using Python allows developers to import libraries and classes to help them create their workflows. Overview Airflow uses directed acyclic graphs (DAGs) to manage workflow orchestration. Tasks and dependencies are defined in Python ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Platform LSF
IBM Spectrum LSF (LSF, originally Platform Load Sharing Facility) is a workload management platform, job scheduler, for distributed high performance computing (HPC) by IBM. Details It can be used to execute batch jobs on networked Unix and Windows systems on many different architectures. LSF was based on the ''Utopia'' research project at the University of Toronto. In 2007, Platform released ''Platform Lava'', which is a simplified version of LSF based on an old version of LSF release, licensed under GNU General Public License The GNU General Public License (GNU GPL or simply GPL) is a series of widely used free software licenses that guarantee end users the four freedoms to run, study, share, and modify the software. The license was the first copyleft for general ... v2. The project was discontinued in 2011, succeeded by OpenLava. In January, 2012, Platform Computing was acquired by IBM. The product is now called IBM Spectrum LSF. IBM Spectrum LSF Community Edition ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Pegasus (workflow Management)
Pegasus is an open-source workflow management system. E. Deelman, K. Vahi, G. Juve, M. Rynge, S. Callaghan, P. J. Maechling, R. Mayani, W. Chen, R. Ferreira da Silva, M. Livny, and K. Wenger"Future Generation Computer Systems" ''Elsevier''; 46, pp. 17-35 (2015)E.A. Huerta, R. Haas, E. Fajardo, D.S. Katz, S. Anderson, P. Couvares ,J. Willis, T. Bouvet, J. Enos, W.T.C. Kramer, H.W. Leong, and D. Wheeler"BOSS-LDG: A Novel Computational Framework That Brings Together Blue Waters, Open Science Grid, Shifter and the LIGO Data Grid to Accelerate Gravitational Wave Discovery" '' 2017 IEEE 13th International Conference on e-Science (e-Science)''; pp. 335-344 (2017)B. Riedel, B. Bauermeister, L. Bryant, J. Conrad, P. de Perio, R. W. Gardner ,L. Grandi, F. Lombardi, A. Rizzo, G. Sartorelli, M. Selvi, E. Shockley, J. Stephen, S. Thapa, and C. Tunnel"Distributed Data and Job Management for the XENON1T Experiment" ''PEARC '18: Proceedings of the Practice and Experience on Advanced Re ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Software Freedom Conservancy
Software Freedom Conservancy, Inc. is an organization that provides a non-profit home and infrastructure support for free and open source software projects. The organization was established in 2006, and as of June 2022, had over 40 member projects. History In 2007 Conservancy started coordinating GNU General Public License compliance and enforcement actions, primarily for the BusyBox project. In October 2010, Conservancy hired its first executive director, Bradley M. Kuhn and a year later, its first General Counsel, Tony Sebro. In May 2012, Conservancy took on GPL compliance and enforcement for several other member projects, as well as for a number of individual Linux kernel developers. In March 2014, Conservancy appointed Karen Sandler as its Executive Director, with Bradley M. Kuhn taking on the role as Distinguished Technologist. In February 2015, the Outreachy program (formerly the Free and Open Source Software Program for Women) announced that it was moving from The ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Workflow Languages
A workflow consists of an orchestrated and repeatable pattern of activity, enabled by the systematic organization of resources into processes that transform materials, provide services, or process information. It can be depicted as a sequence of operations, the work of a person or group, the work of an organization of staff, or one or more simple or complex mechanisms. From a more abstract or higher-level perspective, workflow may be considered a view or representation of real work. The flow being described may refer to a document, service, or product that is being transferred from one step to another. Workflows may be viewed as one fundamental building block to be combined with other parts of an organization's structure such as information technology, teams, projects and hierarchies. Historical development The development of the concept of a workflow occurred above a series of loosely defined, overlapping eras. Beginnings in manufacturing The modern history of workflows ca ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Cloud Standards
Cloud computing is the on-demand availability of computer system resources, especially data storage (cloud storage) and computing power, without direct active management by the user. Large clouds often have functions distributed over multiple locations, each of which is a data center. Cloud computing relies on sharing of resources to achieve coherence and typically uses a "pay as you go" model, which can help in reducing capital expenses but may also lead to unexpected operating expenses for users. Value proposition Advocates of public and hybrid clouds claim that cloud computing allows companies to avoid or minimize up-front IT infrastructure costs. Proponents also claim that cloud computing allows enterprises to get their applications up and running faster, with improved manageability and less maintenance, and that it enables IT teams to more rapidly adjust resources to meet fluctuating and unpredictable demand, providing burst computing capability: high computing power ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Computer Standards
A computer is a machine that can be programmed to carry out sequences of arithmetic or logical operations (computation) automatically. Modern digital electronic computers can perform generic sets of operations known as programs. These programs enable computers to perform a wide range of tasks. A computer system is a nominally complete computer that includes the hardware, operating system (main software), and peripheral equipment needed and used for full operation. This term may also refer to a group of computers that are linked and function together, such as a computer network or computer cluster. A broad range of industrial and consumer products use computers as control systems. Simple special-purpose devices like microwave ovens and remote controls are included, as are factory devices like industrial robots and computer-aided design, as well as general-purpose devices like personal computers and mobile devices like smartphones. Computers power the Internet, which links bill ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
