Browsing by Author "Wernert, Eric"
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Item 2012 Annual Report - Advanced Biomedical Information Technology Core(2012-11-30) Barnett, William K.; Shankar, Ganesh; Hancock, David Y.; Allen, Matthew; Seiffert, Kurt; Boyles, Mike; Rogers, Jeffrey L.; Wernert, Eric; Link, Matthew R.; Stewart, Craig A.Item "Best Practices and Models for Sustainability for Robust Cyberinfrastructure Software” - Survey Dataset and Analyses(2014-02-14) Wernert, Julie; Wernert, Eric; Fischer, Jeremy; Terhune, Heather; Bowers, Ashley; Miller, Therese; Stewart, Craig A.This document represents the data (and associated analysis) collected in the 2012 Software Sustainability Survey, conducted as part of the National Science Foundation EAGER grant (NSF Award #1147606, PI Craig Stewart, et al.) entitled “Best Practices and Models for Sustainability for Robust Cyberinfrastructure Software.” The survey aimed to identify the best practices and models required for developing, deploying, and supporting robust, sustainable cyberinfrastructure software, as well as to identify key factors users consider in software adoption. Further, the survey attempted to aggregate attitudes about the importance of sustained software in scientific research.Item Better than the Real Thing: Reality Labs at IU(2017-10-19) Wernert, Eric; Johnston, Julie; Boyles, Michael; Decker, MattItem Computational Biology: Data, computation, and visualization(2003-08-07) Stewart, Craig A.; Wernert, EricItem Cyberinfrastructure, Cloud Computing, Science Gateways, Visualization, and Cyberinfrastructure Ease of Use(IGI Global, 2017-07-01) Stewart, Craig A.; Knepper, Richard; Link, Matthew R.; Pierce, Marlon; Wernert, Eric; Wilkins-Diehr, NancyComputers accelerate our ability to achieve scientific breakthroughs. As technology evolves and new research needs come to light, the role for cyberinfrastructure as “knowledge” infrastructure continues to expand. In essence, cyberinfra- structure can be thought of as the integration of supercomputers, data resources, visualization, and people that extends the impact and utility of information technology. This article defines and discusses cyberinfrastructure and the related topics of science gateways and campus bridging, identifies future challenges in cyberinfrastructure, and discusses challenges and opportunities related to the evolution of cyberinfrastructure and cloud computing.Item Evolutionary biology and computational grids(1999-11-10) Stewart, Craig A.; Tan, Tin Wee; Buckhorn, Markus; Hart, David; Berry, Donald K.; Zhang, Louxin; Wernert, Eric; Sakharkar, Meena; Fischer, Will; McMullen, Donald F.The global high performance computing community has seen two overarching changes in the past five years. One of these changes was the consolidation toward SMP clusters as the predominant HPC system architecture. The other change was the emergence of computing grids as an important architecture in high performance computing. Several major national and international projects are now underway to develop grid technologies. Computational grids will increase the resources available to the most advanced computational scientists and encourage the use of advanced techniques by researchers who have not traditionally employed such technologies. In the latter camp are bioinformaticists in general and evolutionary biologists in particular, although this situation is changing rapidly.Item Getting more from your research data(2018-01-30) Wernert, EricAn Overview of the UITS/RT Data, Analytics, and Visualization Workshop SeriesItem Global Analysis of Arthropod Evolution(2004-03-09) Stewart, Craig A.; Repasky, Richard; Colbourne, John; Hart, David; Berry, Donald K.; Sheppard, Ray; Wernert, Eric; Papakhian, Mary; Huffman, John N.Item Indiana University's Advanced Cyberinfrastructure(2011-08) Arenson, Andrew; Boyles, Michael; Cruise, Robert; Gopu, Arvind; Hart, David; Lindenlaub, Peg; Papakhian, Mary; Samuel, John; Seiffert, Kurt; Shankar, Anurag; Stewart, Craig A.; Wernert, EricThe purpose of this document is to introduce researchers to Indiana University’s cyberinfrastructure – to clarify what these facilities make possible, to discuss how to use them and the professional staff available to work with you. The resources described here are complex and varied, among the most advanced in the world. The intended audience is anyone unfamiliar with IU’s cyberinfrastructure.Item Information technology in support of research, scholarship, and creative activities: A strategic plan for Research Technologies – a division of UITS and a PTI Service and Cyberinfrastructure Center(2012-07-13) Stewart, Craig A.; Link, Matthew R.; Wernert, Eric; Barnett, William K.; Miller, Therese M.IU is currently executing its second information technology strategic plan – Empowering People: Indiana University's Strategic Plan for Information Technology 2009 (hereafter referred to as Empowering People). In this document, we set out long-term goals for the Research Technologies (RT) division of UITS, reaffirm specific goals set for RT for 2019, describe Actions within Empowering People for which RT is responsible, and describe the new internal structure of Research Technologies. The mission of the Research Technologies division of UITS is to develop, deliver, and support advanced technology solutions that improve productivity of and enable new possibilities in research, scholarly endeavors, and creative activity at Indiana University and beyond; and to complement this with education and technology translation activities to improve the quality of life of people in Indiana, the nation, and the world.Item INGEN's advanced IT facilities: The least you need to know(2002) Cruise, Robert; Hart, David; Papakhian, Mary; Repasky, Richard; Samuel, John; Shankar, Anurag; Stewart, Craig A.; Wernert, EricItem IQ-Wall: An Open Standard for Tiled Video Walls that Balances Flexibility, Usability, Performance, and Cost(2016-06-29) Boyles, Michael; Gniady, Tassie; Wernert, Eric; Eller, Chris; Reagan, David; Rogers, JeffTiled video walls are engaging, useful, and pervasive in our everyday environment. They can be especially attractive to higher education institutions looking to spur innovation in teaching, research, and collaboration. However, if not thoughtfully designed, video walls can be expensive, difficult to maintain, and provide only limited functionality. Indiana University has been working with video walls for more than 10 years, using them in a variety of settings to support faculty, staff, and students in a broad range of research, education, community engagement, and creative activities. This experience has led to the development of an open hardware and software standard for video walls that provides flexibility, usability, maintainability, and the lowest possible costs while still maintaining good performance and high visual quality. In this paper, we share the motivations and technical details behind this open standard, as well as the lessons learned in b uilding and supporting tiled video walls as multi-purpose displays.Item Maximum Likelihood Analysis Of Phylogenetic Data(1998-11) Hart, David; Palmer, Jeffrey; Fischer, Will; Turner, Sean; Berry, Don K.; Wernert, Eric; Stewart, Craig A.; Tan, Tin Wee; Sakharkar, Meena; Zhang, Lou Xin; Buchhorn, Markus; Potter, TimDNA data has accumulated more rapidly in recent years than compute power, so researchers must often exclude potentially informative data to make statistical analysis practical. For SC'98, the computationally intensive maximum-likelihood method of phylogenetic inference is used on three medium-to-large datasets: for cytoplasmic coat proteins, mycrosporidia, and cyanobacteria.Item Models for Sustainability for Robust Cyberinfrastructure Software - Software Sustainability Survey(2014-02-14) Wernert, Julie; Wernert, Eric; Stewart, CraigThis report summarizes the responses to the 2012 Software Sustainability Survey, conducted as part of the NSF EAGER grant (NSF:1147606) titled "Best Practices and Models for Sustainability for Robust Cyberinfrastructure Software." The survey aimed to identify best practices and models for developing, deploying, and supporting sustainable software and identify key factors to consider in software adoption.Item Parallel implementation and performance of fastDNAml - a program for maximum likelihood phylogenetic inference(2001-11-14) Stewart, Craig A.; Hart, David; Berry, Donald K.; Olsen, Gary J.; Wernert, Eric; Fischer, WillItem Pervasive Technology Institute Annual Report: Research Innovations and Advanced Cyberinfrastructure Services in Support of IU Strategic Goals During FY 2017(2017-07-31) Stewart, Craig; Plale, Beth; Welch, Von; Pierce, Marlon; Fox, Geoffrey C.; Doak, Thomas G.; Hancock, David Y.; Henschel, Robert; Link, Matthew R.; Miller, Therese; Wernert, Eric; Boyles, Michael J.; Fulton, Ben; Weakley, Le Mai; Ping, Robert; Gniady, Tassie; Snapp-Childs, WinonaItem Research and Academic Computing Implementation Plan(2000-07) Peebles, Christopher S.; Stewart, Craig A.; Bernbom, Gerry; McMullen, Donald F.; Shankar, Anurag; Samuel, John; Daniels, John; Papakhian, Mary; Hart, David; Walsh, John; Wernert, EricItem Services and support for IU School of Medicine and Clinical Affairs Schools by the UITS/PTI Advanced Biomedical Information Technology Core and Research Technologies Division in FY 2013 - Extended Version(Indiana University: UITS/PTI ABITC and RT Division, 2013-12-19) Stewart, Craig A.; Barnett, William K.; Link, Matthew R.; Shankar, Ganesh; Miller, Therese; Michael, Scott; Henschel, Robert; Boyles, Michael J.; Wernert, Eric; Quick, RobertThe report presents information on services delivered in FY 2013 by ABITC and RT to the IU School of Medicine and the other Clinical Affairs schools that include the Schools of Nursing, Dentistry, Health and Rehabilitation Sciences, and Optometry; the Fairbanks School of Public Health at IUPUI; the School of Public Health at IU Bloomington; and the School of Social Work.Item Services and Support for the IU School of Medicine and Other Clinical Affairs Schools Provided by the Research Technologies Division of UITS and the Advanced Biomedical Information Technology Core in FY 2013 – Condensed Version(2014-04) Stewart, Craig A.; Barnett, W. K.; Link, Matthew R.; Shankar, G.; Miller, Therese; Michael, S.; Henschel, Robert; Boyles, M. J.; Wernert, Eric; Quick, RobThis is a condensed version of a longer report at http://hdl.handle.net/2022/17216 and presents information on services delivered in FY 2013 by ABITC and RT to the IU School of Medicine and the other Clinical Affairs schools that include the Schools of Nursing, Dentistry, Health and Rehabilitation Sciences, and Optometry; the Fairbanks School of Public Health at IUPUI; the School of Public Health at IU Bloomington; and the School of Social Work.Item TextRWeb: Large-Scale Text Analytics with R on the Web(2014-07-13) Ruan, Guangchen; Zhang, Hui; Wernert, Eric; Plale, BethAs digital data sources grow in number and size, they pose an opportunity for computational investigation by means of text mining, NLP, and other text analysis techniques. R is a popular and powerful text analytics tool; however, it needs to run in parallel and re- quires special handling to protect copyrighted content against full access (consumption). The HathiTrust Research Center (HTRC) currently has 11 million volumes (books) where 7 million volumes are copyrighted. In this paper we propose HTRC TextRWeb, an interactive R software environment which employs complexity hiding interfaces and automatic code generation to allow large-scale text analytics in a non-consumptive means. For our principal test case of copyrighted data in HathiTrust Digital Library, TextRWeb permits us to code, edit, and submit text analytics methods empowered by a family of interactive web user interfaces. All these methods combine to reveal a new interactive paradigm for large-scale text analytics on the web.