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2020 – today
- 2024
[j23]Nuwan Goonasekera
, Alexandru Mahmoud, Keith Suderman, Enis Afgan:
Galaxy Helm chart: a standardized method for deploying production Galaxy servers. Bioinform. 40(8) (2024)- 2023
- [i3]Nuwan Goonasekera, Catherine J. Bromhead, Simon L. Gladman, Nate Coraor, Björn A. Grüning, Enis Afgan:
Right-sizing compute resource allocations for bioinformatics tools with Total Perspective Vortex. CoRR abs/2312.02060 (2023) - 2022
- [j22]Enis Afgan, Anton Nekrutenko, Björn A. Grüning, Daniel J. Blankenberg, Jeremy Goecks, Michael C. Schatz, Alexander E. Ostrovsky, Alexandru Mahmoud, Andrew J. Lonie, Anna Syme, Anne Fouilloux, Anthony Bretaudeau, Anup Kumar, Arthur C. Eschenlauer, Assunta D. Desanto, Aysam Guerler, Beatriz Serrano-Solano, Bérénice Batut, Bradley W. Langhorst, Bridget Carr, Bryan A. Raubenolt, Cameron J. Hyde, Catherine J. Bromhead, Christopher B. Barnett, Coline Royaux, Cristóbal Gallardo, Daniel J. Fornika, Dannon Baker, Dave Bouvier, Dave Clements, David A. de Lima Morais, David Lopez Tabernero, Delphine Larivière, Engy Nasr, Federico Zambelli, Florian Heyl, Fotis E. Psomopoulos, Frederik Coppens, Gareth R. Price, Gianmauro Cuccuru, Gildas Le Corguillé, Gregory Von Kuster, Gulsum Gudukbay, Helena Rasche, Hans-Rudolf Hotz, Ignacio Eguinoa, Igor V. Makunin, Isuru Ranawaka, James Taylor, Jayadev Joshi, Jennifer Hillman-Jackson, John Chilton, Kaivan Kamali, Keith Suderman, Krzysztof Poterlowicz, Yvan Le Bras, Lucille Lopez-Delisle, Luke Sargent, Madeline E. Bassetti, Marco Antonio Tangaro, Marius van den Beek, Martin Cech, Matthias Bernt, Matthias Fahrner, Mehmet Tekman, Melanie Christine Föll, Michael R. Crusoe, Miguel Roncoroni, Natalie Kucher, Nate Coraor, Nicholas Stoler, Nick Rhodes, Nicola Soranzo, Niko Pinter, Nuwan Goonasekera, Pablo A. Moreno, Pavankumar Videm, Petera Melanie, Pietro Mandreoli, Pratik D. Jagtap, Qiang Gu, Ralf J. M. Weber, Ross Lazarus, Ruben H. P. Vorderman, Saskia D. Hiltemann, Sergey Golitsynskiy, Shilpa Garg, Simon A. Bray, Simon L. Gladman, Simone Leo, Subina P. Mehta, Timothy J. Griffin, Vahid Jalili, Yves Vandenbrouck, Victor Wen, Vijay K. Nagampalli, Wendi A. Bacon, Willem L. De Koning, Wolfgang Maier, Peter J. Briggs:
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update. Nucleic Acids Res. 50(W1): 345-351 (2022) - [c25]Isuru Ranawaka, Nuwan Goonasekera, Enis Afgan, Jim Basney, Suresh Marru, Marlon E. Pierce:
Custos Secrets: a Service for Managing User-Provided Resource Credential Secrets for Science Gateways. PEARC 2022: 40:1-40:4 - 2021
- [j21]Nuwan Goonasekera, Alexandru Mahmoud, John Chilton, Enis Afgan:
GalaxyCloudRunner: enhancing scalable computing for Galaxy. Bioinform. 37(12): 1763-1765 (2021) - [c24]Gulsum Gudukbay, Jashwant Raj Gunasekaran, Yilin Feng, Mahmut T. Kandemir, Anton Nekrutenko, Chita R. Das, Paul Medvedev, Björn A. Grüning, Nate Coraor, Nathan Roach, Enis Afgan:
GYAN: Accelerating Bioinformatics Tools in Galaxy with GPU-Aware Computation Mapping. IPDPS Workshops 2021: 194-203 - [i2]Isuru Ranawaka, Samitha Liyanage, Dannon Baker, Alexandru Mahmoud, Juleen Graham, Terry Fleury, Dimuthu Wannipurage, Yu Ma, Enis Afgan, Jim Basney, Suresh Marru, Marlon E. Pierce:
Experiences with Integrating Custos SecurityServices. CoRR abs/2107.04172 (2021) - 2020
- [j20]Vahid Jalili, Enis Afgan, James Taylor, Jeremy Goecks:
Cloud bursting galaxy: federated identity and access management. Bioinform. 36(1): 1-9 (2020) - [j19]Vahid Jalili, Enis Afgan, Qiang Gu, Dave Clements, Daniel J. Blankenberg, Jeremy Goecks, James Taylor, Anton Nekrutenko:
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update. Nucleic Acids Res. 48(Webserver-Issue): W395-W402 (2020) - [c23]Isuru Ranawaka, Suresh Marru, Juleen Graham, Aarushi Bisht, Jim Basney, Terry Fleury, Jeff Gaynor, Dimuthu Wannipurage, Marcus Christie, Alexandru Mahmoud, Enis Afgan, Marlon E. Pierce:
Custos: Security Middleware for Science Gateways. PEARC 2020: 278-284
2010 – 2019
- 2019
- [j18]David Y. Hancock, Craig A. Stewart, Matthew Vaughn, Jeremy Fischer, John Michael Lowe, George W. Turner, Tyson Lee Swetnam, Tyler K. Chafin, Enis Afgan, Marlon E. Pierce, Winona Snapp-Childs:
Jetstream - Early operations performance, adoption, and impacts. Concurr. Comput. Pract. Exp. 31(16) (2019) - [j17]Enis Afgan, Andrew Lonie, James Taylor, Nuwan Goonasekera:
CloudLaunch: Discover and deploy cloud applications. Future Gener. Comput. Syst. 94: 802-810 (2019) - 2018
- [j16]Enis Afgan, Dannon Baker, Bérénice Batut, Marius van den Beek, Dave Bouvier, Martin Cech, John Chilton, Dave Clements, Nate Coraor, Björn A. Grüning, Aysam Guerler, Jennifer Hillman-Jackson, Saskia D. Hiltemann, Vahid Jalili, Helena Rasche, Nicola Soranzo, Jeremy Goecks, James Taylor, Anton Nekrutenko, Daniel J. Blankenberg:
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update. Nucleic Acids Res. 46(Webserver-Issue): W537-W544 (2018) - [c22]Enis Afgan, Vahid Jalili, Nuwan Goonasekera, James Taylor, Jeremy Goecks:
Federated Galaxy: Biomedical Computing at the Frontier. IEEE CLOUD 2018: 871-874 - [c21]Marlon E. Pierce, Mark A. Miller, Emre H. Brookes, Mona Wong, Yan Liu, Enis Afgan, Sandra Gesing, Maytal Dahan, Suresh Marru, Tony Walker:
Towards a Science Gateway Reference Architecture. IWSG 2018 - [i1]Enis Afgan, Andrew Lonie, James Taylor, Nuwan Goonasekera:
CloudLaunch: Discover and Deploy Cloud Applications. CoRR abs/1805.04005 (2018) - 2016
- [j15]Enis Afgan, Dannon Baker, Marius van den Beek, Daniel J. Blankenberg, Dave Bouvier, Martin Cech, John Chilton, Dave Clements, Nate Coraor, Carl Eberhard, Björn A. Grüning, Aysam Guerler, Jennifer Hillman-Jackson, Gregory Von Kuster, Eric Rasche, Nicola Soranzo, Nitesh Turaga, James Taylor, Anton Nekrutenko, Jeremy Goecks:
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. Nucleic Acids Res. 44(Webserver-Issue): W3-W10 (2016) - [j14]Lukas Forer, Enis Afgan, Hansi Weißensteiner, Davor Davidovic, Günther Specht, Florian Kronenberg, Sebastian Schönherr:
Cloudflow - enabling faster biomedical pipelines with MapReduce and Spark. Scalable Comput. Pract. Exp. 17(2): 103-114 (2016) - [j13]Karolj Skala, Roman Trobec, Enis Afgan:
Introduction to the Special Issue on Distributed Computing with Applications in Bioengineering. Scalable Comput. Pract. Exp. 17(2): iii-iv (2016) - [c20]Enis Afgan, Andrew Lonie, James Taylor, Karolj Skala, Nuwan Goonasekera:
Architectural models for deploying and running virtual laboratories in the cloud. MIPRO 2016: 282-286 - [c19]Nuwan Goonasekera, Andrew Lonie, James Taylor, Enis Afgan:
CloudBridge: a Simple Cross-Cloud Python Library. XSEDE 2016: 37:1-37:8 - 2015
- [j12]Enis Afgan, Nathan Coraor, John Chilton, Dannon Baker, James Taylor, The Galaxy Team:
Enabling cloud bursting for life sciences within Galaxy. Concurr. Comput. Pract. Exp. 27(16): 4330-4343 (2015) - [j11]Karolj Skala, Davor Davidovic, Enis Afgan, Ivan Sovic, Zorislav Sojat:
Scalable Distributed Computing Hierarchy: Cloud, Fog and Dew Computing. Open J. Cloud Comput. 2(1): 16-24 (2015) - [c18]Lukas Forer, Enis Afgan, Hansi Weißensteiner, Davor Davidovic, Günther Specht, Florian Kronenberg, Sebastian Schönherr:
Cloudflow - A framework for MapReduce pipeline development in Biomedical Research. MIPRO 2015: 172-177 - [c17]Enis Afgan, Konstantinos Krampis, Nuwan Goonasekera, Karolj Skala, James Taylor:
Building and provisioning bioinformatics environments on public and private Clouds. MIPRO 2015: 223-228 - 2014
- [j10]Simone Leo, Luca Pireddu, Gianmauro Cuccuru, Luca Lianas, Nicola Soranzo, Enis Afgan, Gianluigi Zanetti:
BioBlend.objects: metacomputing with Galaxy. Bioinform. 30(19): 2816-2817 (2014) - [j9]Steffen Möller, Enis Afgan, Michael Banck, Raoul Jean Pierre Bonnal, Timothy Booth, John Chilton, Peter J. A. Cock, Markus Gumbel, Nomi L. Harris, Richard C. G. Holland, Matús Kalas, László Kaján, Eri Kibukawa, David R. Powell, Pjotr Prins, Jacqueline Quinn, Olivier Sallou, Francesco Strozzi, Torsten Seemann, Clare Sloggett, Stian Soiland-Reyes, William Spooner, Sascha Steinbiss, Andreas Tille, Anthony J. Travis, Roman Guimera, Toshiaki Katayama, Brad A. Chapman:
Community-driven development for computational biology at Sprints, Hackathons and Codefests. BMC Bioinform. 15(S-14): S7 (2014) - [c16]Lukas Forer, Tomislav Lipic, Sebastian Schönherr, Hansi Weißensteiner, Davor Davidovic, Florian Kronenberg, Enis Afgan:
Delivering bioinformatics MapReduce applications in the cloud. MIPRO 2014: 373-377 - [c15]Enis Afgan, Dannon Baker, John Chilton, Nathan Coraor, James Taylor:
Galaxy cluster to cloud - genomics at scale. GCE@SC 2014: 47-50 - 2013
- [j8]Clare Sloggett, Nuwan Goonasekera, Enis Afgan:
BioBlend: automating pipeline analyses within Galaxy and CloudMan. Bioinform. 29(13): 1685-1686 (2013) - [j7]Tibor Skala, Karolj Skala, Enis Afgan:
Impact of 3D Graphic Structure Complexity to the Rendering Time. J. Circuits Syst. Comput. 22(7) (2013) - 2012
- [j6]Enis Afgan, Brad Chapman, James Taylor:
CloudMan as a platform for tool, data, and analysis distribution. BMC Bioinform. 13: 315 (2012) - [j5]Enis Afgan, Dannon Baker, Anton Nekrutenko, James Taylor:
A reference model for deploying applications in virtualized environments. Concurr. Comput. Pract. Exp. 24(12): 1349-1361 (2012) - [j4]Enis Afgan, Purushotham V. Bangalore, Tibor Skala:
Scheduling and planning job execution of loosely coupled applications. J. Supercomput. 59(3): 1431-1454 (2012) - [c14]Timothy Booth, Mesude Bicak, Hyun Soon Gweon, Dawn Field, Enis Afgan:
Bio-Linux as a tool for bioinformatics training. BIBE 2012: 578-582 - [c13]Enis Afgan, Karolj Skala, Davor Davidovic, Tomislav Lipic, Ivan Sovic:
CloudMan as a tool execution framework for the cloud. MIPRO 2012: 437-441 - 2011
- [j3]Enis Afgan, Purushotham V. Bangalore, Karolj Skala:
Application Information Services for distributed computing environments. Future Gener. Comput. Syst. 27(2): 173-181 (2011) - [p1]Enis Afgan, Jeremy Goecks, Dannon Baker, Nate Coraor, Anton Nekrutenko, James Taylor:
Galaxy: A Gateway to Tools in e-Science. Guide to e-Science 2011: 145-177 - 2010
- [j2]Enis Afgan, Dannon Baker, Nathan Coraor, Brad Chapman, Anton Nekrutenko, James Taylor:
Galaxy CloudMan: delivering cloud compute clusters. BMC Bioinform. 11(S-12): S4 (2010) - [j1]Enis Afgan, Purushotham V. Bangalore:
Exploiting performance characterization of BLAST in the grid. Clust. Comput. 13(4): 385-395 (2010)
2000 – 2009
- 2009
- [c12]Enis Afgan, Purushotham V. Bangalore, Dustin Duncan:
GridAtlas - A grid application and resource configuration repository and discovery service. CLUSTER 2009: 1-10 - 2008
- [c11]Purushotham V. Bangalore, Enis Afgan:
G-BLAST: A Grid Service for BLAST. GCA 2008: 264-270 - [c10]Enis Afgan, Purushotham V. Bangalore:
Experiences with developing and deploying dynamic BLAST. Mardi Gras Conference 2008: 38 - [c9]Mahantesh Halappanavar, John-Paul Robinson, Enis Afgan, Mary Fran Yafchak, Purushotham V. Bangalore:
A common application platform for the SURAgrid (CAP). Mardi Gras Conference 2008: 41 - [c8]Enis Afgan, Purushotham V. Bangalore:
Embarrassingly parallel jobs are not embarrassingly easy to schedule on the grid. MTAGS@SC 2008: 1-10 - 2007
- [c7]Enis Afgan, Purushotham V. Bangalore:
Performance Characterization of BLAST for the Grid. BIBE 2007: 1394-1398 - [c6]Enis Afgan, Purushotham V. Bangalore:
Application Specification Language (ASL) - A Language for Describing Applications in Grid Computing. GSEM 2007: 24-38 - [c5]Enis Afgan, Jeffrey G. Gray, Purushotham V. Bangalore:
Using Domain-Specific Modeling to Generate User Interfaces for Wizards. MDDAUI@MoDELS 2007 - 2006
- [c4]Enis Afgan, William T. Jones:
Design, development and usage of a generic job submission grid service. ACM Southeast Regional Conference 2006: 738-739 - [c3]Enis Afgan, Pavithran Sathyanarayana, Purushotham V. Bangalore:
Dynamic Task Distribution in the Grid for BLAST. GrC 2006: 554-557 - 2005
- [c2]Enis Afgan, Vijay Velusamy, Purushotham V. Bangalore:
Grid Resource Broker Using Application Benchmarking. EGC 2005: 691-701 - 2004
- [c1]Enis Afgan:
Role of the resource broker in the Grid. ACM Southeast Regional Conference 2004: 299-300
Coauthor Index
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