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  2018 (6)
Navigating High Performance Computing (HPC) Resources. Sanders, S.; Papudeshi, B.; Ganote, C.; and Doak, T. . 10 2018.
Navigating High Performance Computing (HPC) Resources [link]Website   bibtex   abstract
RNA-Seq Demo on Galaxy. Ganote, C.; Papudeshi, B.; Sanders, S.; and Doak, T. . 10 2018.
RNA-Seq Demo on Galaxy [pdf]Paper   RNA-Seq Demo on Galaxy [link]Website   bibtex   abstract
Introduction to Metagenomics. Papudeshi, B.; Sanders, S.; Ganote, C.; and Doak, T. . 10 2018.
Introduction to Metagenomics [pdf]Paper   Introduction to Metagenomics [link]Website   bibtex   abstract
National Center for Genome Analysis Support (NCGAS) use and development of Tripal Genome Browsers on XSEDE’s Jetstream. Sanders, S.; Ganote, C.; Papudeshi, B.; and Doak, T. . 1 2018.
National Center for Genome Analysis Support (NCGAS) use and development of Tripal Genome Browsers on XSEDE’s Jetstream [pdf]Paper   National Center for Genome Analysis Support (NCGAS) use and development of Tripal Genome Browsers on XSEDE’s Jetstream [link]Website   bibtex   abstract
Bioinformatic analysis using Jetstream, a cloud computing environment. Papudeshi, B.; Sanders, S.; Ganote, C.; Fischer, J.; and Doak, T. . 1 2018.
Bioinformatic analysis using Jetstream, a cloud computing environment [link]Website   bibtex   abstract
Introducing CAFE: Computational Analysis of (gene) Family Evolution. Ganote, C.; Mendes, F.; Henschel, R.; Hahn, M.; and Fulton, B. . 1 2018.
Introducing CAFE: Computational Analysis of (gene) Family Evolution [link]Website   bibtex   abstract
  2017 (5)
The National Center for Genome Analysis Support. Ganote, C.; Doak, T.; Blood, P.; and Sanders, S. In Great Lakes Bioinformatics Conference, Chicago, 5 2017.
The National Center for Genome Analysis Support [pdf]Paper   The National Center for Genome Analysis Support [link]Website   bibtex   abstract
Cluster Quick Start. Sanders, S.; Doak, T.; and Ganote, C. Mount Desert Island Biological Laboratory. 7 2017.
Cluster Quick Start [pdf]Paper   Cluster Quick Start [link]Website   bibtex   abstract
deNovo Transcriptome Assembly. Sanders, S.; Ganote, C.; and Doak, T. In Mount Desert Island Biological Laboratory, 7 2017.
deNovo Transcriptome Assembly [pdf]Paper   deNovo Transcriptome Assembly [link]Website   bibtex   abstract
NCGAS: Providing National Cyberinfrastructure to Biologists, with a Focus on Genomics. Doak, T.; Blood, P.; Ganote, C.; and Sanders, S. In Great Plains Network Monthly Webinar, Online, 4 2017.
NCGAS: Providing National Cyberinfrastructure to Biologists, with a Focus on Genomics [link]Website   bibtex   abstract
Supercomputing resources for open, accessible, reproducible genomic analysis. Blood, P. In Joint CAMI-M3 workshop on metagenomic software validation, 2017.
Supercomputing resources for open, accessible, reproducible genomic analysis [pdf]Paper   Supercomputing resources for open, accessible, reproducible genomic analysis [link]Website   bibtex
  2016 (9)
Computational Considerations in Transcriptome Assemblies and Their Evaluation, using High Quality Human RNA-Seq data. Ghaffari, N.; Abante, J.; Singh, R.; Blood, P., D.; and Johnson, C., D. In Proceedings of the XSEDE16 on Diversity, Big Data, and Science at Scale - XSEDE16, pages 1-4, 2016. ACM Press
Computational Considerations in Transcriptome Assemblies and Their Evaluation, using High Quality Human RNA-Seq data [pdf]Paper   Computational Considerations in Transcriptome Assemblies and Their Evaluation, using High Quality Human RNA-Seq data [link]Website   bibtex
The White Coats are Coming: The Growth, Success, and Future of Computing in Biology. Sanders, S.; Ganote, C.; and Doak, T. In Supercomputing, 11 2016.
The White Coats are Coming: The Growth, Success, and Future of Computing in Biology [pdf]Paper   The White Coats are Coming: The Growth, Success, and Future of Computing in Biology [link]Website   bibtex   abstract
Navigating High Performance Computing (HPC) Resources. Sanders, S.; Ganote, C.; and Doak, T. In Workshop at Bethune-Cookman University, Daytona, FL, 4 2016.
Navigating High Performance Computing (HPC) Resources [link]Website   bibtex   abstract
Moving Off GUIs: A Guide to What’s Next. Sanders, S.; Ganote, C.; and Doak, T. In Indiana University, Bloomington, 10 2016.
Moving Off GUIs: A Guide to What’s Next [pdf]Paper   Moving Off GUIs: A Guide to What’s Next [link]Website   bibtex   abstract
Moving Forward in Bioinformatics. Sanders, S.; Ganote, C.; and Doak, T. In Bethune-Cookman University, Daytona, FL, 11 2016.
Moving Forward in Bioinformatics [pdf]Paper   Moving Forward in Bioinformatics [link]Website   bibtex   abstract
Data Movement and Management. Sanders, S.; Ganote, C.; and Doak, T. In Mount Desert Island Biological Laboratory, 8 2016.
Data Movement and Management [pdf]Paper   Data Movement and Management [link]Website   bibtex   abstract
Cluster Quick Guide. Sanders, S.; Ganote, C.; and Doak, T. In Mount Desert Island Biological Laboratory, 8 2016.
Cluster Quick Guide [pdf]Paper   Cluster Quick Guide [link]Website   bibtex   abstract
NCGAS: Providing National Cyberinfrastructure to Biologists, esp. Genomicists. Doak, T.; Blood, P.; Ganote, C.; and Sanders, S. In 2017 Kickoff Meeting, 2 2016.
NCGAS: Providing National Cyberinfrastructure to Biologists, esp. Genomicists. [link]Website   bibtex   abstract
Providing National Cyberinfrastructure to Biologists, esp. Genomicists. Doak, T.; and Heiskanen, M. In ITCR Presentations, 2016.
Providing National Cyberinfrastructure to Biologists, esp. Genomicists [link]Website   bibtex
  2015 (4)
RNA-Seq Demo on Galaxy. Ganote, C.; Wu, L.; and Doak, T. In Campus and at Bioinformatics Clinic, 2015.
RNA-Seq Demo on Galaxy [pdf]Paper   RNA-Seq Demo on Galaxy [link]Website   bibtex
Introduction to Galaxy 2015. Ganote, C.; Wu, L.; and Doak, T. In Bioinformatics Clinic at Indiana University, 2015.
Introduction to Galaxy 2015 [link]Website   bibtex
Galaxy Deployments at Indiana University. Ganote, C. In Bioinformatics Clinic at Indiana University, 2015.
Galaxy Deployments at Indiana University [link]Website   bibtex
Automating work in Galaxy. Ganote, C.; Wu, L.; and Doak, T. In Bioinformatics Clinic at Indiana University, 2015.
Automating work in Galaxy [link]Website   bibtex
  2014 (12)
Using National Cyberinfrastructure. Ganote, C.; and Doak, T. 9 2014.
Using National Cyberinfrastructure [pdf]Paper   Using National Cyberinfrastructure [link]Website   bibtex   abstract
The National Center for Genome Analysis Support. Ganote, C.; Wu, L.; Doak, T.; and Barnett, W. . 2014.
The National Center for Genome Analysis Support [link]Website   bibtex
Tackling Big Genomics Data. LeDuc, R. . 2014.
Tackling Big Genomics Data [link]Website   bibtex
Quality Control and Assessment of RNA-Seq Data. Ganote, C.; Podicheti, R.; Wu, L.; and Doak, T. . 2014.
Quality Control and Assessment of RNA-Seq Data [link]Website   bibtex
Providing National Cyberinfrastructure to Biologists, esp. genomicists. Barnett, W.; and Doak, T. Open Science Grid (OSG) All-Hands Meeting. 2014.
Providing National Cyberinfrastructure to Biologists, esp. genomicists [link]Website   bibtex
The National Center for Genome Analysis Support, IU and You!. Ganote, C.; and Barnett, W. . 2014.
The National Center for Genome Analysis Support, IU and You! [link]Website   bibtex
Moving Large Data to Galaxy. Ganote, C.; Wu, L.; and Doak, T. In IU Bioinformatics Clinic, 2014.
Moving Large Data to Galaxy [link]Website   bibtex
Galaxy for Data Provenance. Ganote, C.; Wu, L.; and Doak, T. In IU Bioinformatics Clinic, 2014.
Galaxy for Data Provenance [link]Website   bibtex
Cyberinfrastructure Resources for Genomics Research. Hallock, B.; Ganote, C.; and Pespeni, M. In Plant and Animal Genome Conference XXII, 2014.
Cyberinfrastructure Resources for Genomics Research [link]Website   bibtex
Introduction to genomics software use on high performance computing systems. Wu, L.; and Ganote, C. . 2014.
Introduction to genomics software use on high performance computing systems [link]Website   bibtex
Galaxy Deployment on Heterogenous Hardware. Ganote, C.; and Hayashi, S. . 2014.
Galaxy Deployment on Heterogenous Hardware [link]Website   bibtex
Computing challenges in working with genomics-scale data. Wu, L.; and Ganote, C. . 2014.
Computing challenges in working with genomics-scale data [link]Website   bibtex
  2013 (9)
Using Prior Knowledge to Improve Scoring in High-Throughput Top-Down Proteomics Experiments. LeDuc, R.; and Wu, L. . 2013.
Using Prior Knowledge to Improve Scoring in High-Throughput Top-Down Proteomics Experiments [link]Website   bibtex
The National Center for Genome Analysis and Support. LeDuc, R.; and Barnett, W. . 2013.
The National Center for Genome Analysis and Support [link]Website   bibtex
Statistical Consideration for Identification and Quantification in Top-Down Proteomics. LeDuc, R. . 2013.
Statistical Consideration for Identification and Quantification in Top-Down Proteomics [link]Website   bibtex
National Center for Genome Analysis Support Leverages XSEDE Resources to Support Life Scientists. Barnett, W.; and LeDuc, R. . 2013.
National Center for Genome Analysis Support Leverages XSEDE Resources to Support Life Scientists [link]Website   bibtex
Optimizing the National Cyberinfrastructure for Lower Bioinformatic Costs: Making the Most of Resources for Publicly Funded Research. Barnett, W.; and LeDuc, R. . 2013.
Optimizing the National Cyberinfrastructure for Lower Bioinformatic Costs: Making the Most of Resources for Publicly Funded Research [link]Website   bibtex
Intro to Using Galaxy for Bioinformatics. Ganote, C.; and Doak, T. . 2013.
Intro to Using Galaxy for Bioinformatics [pdf]Paper   Intro to Using Galaxy for Bioinformatics [link]Website   bibtex
Intro to Bioinformatics-Assembling a Transcriptome. Ganote, C.; and Doak, T. . 2013.
Intro to Bioinformatics-Assembling a Transcriptome [link]Website   bibtex
Next Generation Cyberinfrastructures for Next Generation Sequencing and Genome Science. Barnett, W.; and LeDuc, R. . 2013.
Next Generation Cyberinfrastructures for Next Generation Sequencing and Genome Science [link]Website   bibtex
Galaxy based BLAST submission to distributed national high throughput computing resources. Hayashi, S.; Gesing, S.; Quick, R.; Teige, S.; and Ganote, C. . 2013.
Galaxy based BLAST submission to distributed national high throughput computing resources [pdf]Paper   Galaxy based BLAST submission to distributed national high throughput computing resources [link]Website   bibtex
  2012 (3)
High Performance Data Management and Computational Architectures for Genomics Research at National and International Scales. Barnett, W.; and LeDuc, R. . 2012.
High Performance Data Management and Computational Architectures for Genomics Research at National and International Scales [link]Website   bibtex
Genomics, Transcriptomics, and Proteomics: Engaging Biologists. LeDuc, R. . 2012.
Genomics, Transcriptomics, and Proteomics: Engaging Biologists [link]Website   bibtex
Careers in Computing and Science. LeDuc, R. . 2012.
Careers in Computing and Science [pdf]Paper   Careers in Computing and Science [link]Website   bibtex
  undefined (2)
International Plant and Animal Genome XXVIII.
International Plant and Animal Genome XXVIII [link]Website   bibtex
International Plant and Animal Genome XXVII.
International Plant and Animal Genome XXVII [link]Website   bibtex