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Workload characterization for MG-RAST metagenomic data analytics service in the cloud
2014
2014 IEEE International Conference on Big Data (Big Data)
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In this paper, we characterize the MG-RAST workloads running in the cloud, from the perspectives of computation, I/O, and data transfer. ...
For example, MG-RAST, a production open-public metagenome annotation service, has experienced increasingly large amount of data submission and has demanded scalable resources for the computational needs ...
ACKNOWLEDGMENTS This work was supported in part by the NIH award U01HG006537 "OSDF: Support infrastructure for NextGen sequence storage, analysis, and management", and U.S. ...
doi:10.1109/bigdata.2014.7004394
dblp:conf/bigdataconf/TangBDMGHWM14
fatcat:4qcliocqhbfyxam2ch26dmst2u
A Case Study in Using Discrete-Event Simulation to Improve the Scalability of MG-RAST
2016
Proceedings of the 2016 annual ACM Conference on SIGSIM Principles of Advanced Discrete Simulation - SIGSIM-PADS '16
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The metagenomics analysis server MG-RAST at Argonne National Laboratory, a computational biology data processing platform, is receiving several terabytes of data submissions per month. ...
Discrete-event simulation provides a way to evaluate the performance of MG-RAST with increased workloads without disrupting the production system. ...
Acknowledgments This material was based upon work supported by the U.S. ...
doi:10.1145/2901378.2901387
dblp:conf/pads/RossMJCCRTGM16
fatcat:4gyxkpbznbarlgmznr2kg72e6e
Vision Paper: Grand Challenges in Resilience: Autonomous System Resilience through Design and Runtime Measures
2020
IEEE Open Journal of the Computer Society
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For resilience-by-design, we focus on design methods in software that are needed for our cyber systems to be resilient. ...
For each of the two themes, we survey the current state, and the desired state and ways to get there. ...
However, for global-scale, multi-tenant execution pipelines and data repositories, such as the metagenomics repository MG-RAST [26] , [149] , the workloads may be more dynamic and unpredictable, making ...
doi:10.1109/ojcs.2020.3006807
fatcat:sngt6fii3rhi7hiovtbjj5ptuy
Grand Challenges in Resilience: Autonomous System Resilience through Design and Runtime Measures
[article]
2020
arXiv
pre-print
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Other Versions
For resilience-by-design, we focus on design methods in software that are needed for our cyber systems to be resilient. ...
For each of the two themes, we survey the current state, and the desired state and ways to get there. ...
However, for global-scale, multi-tenant execution pipelines and data repositories, such as the metagenomics repository MG-RAST [24] , [122] , the workloads may be more dynamic and unpredictable, making ...
arXiv:1912.11598v3
fatcat:d4lf2vs4yjbbrnrg7hk65qtbbm
Dagstuhl Reports, Volume 6, Issue 8, August 2016, Complete Issue
[article]
2017
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Resources include EBI, NCBI's SRA, HMP DACC, CAMI, MetaHIT, iMicrobe, MG-RAST, etc. ...
recognition (much harder than recognising a single activity), combining historical data with recently collected data for analytics (short-term vs. longterm)). ...
statistical models for organism identification, or requiring substantial computational resources in order to process the large volumes of data necessary to ensure sufficient coverage. ...
doi:10.4230/dagrep.6.8
fatcat:jhbruchpmvdthoe45w75w35wpe
DGHM Lecture 2015
2015
International Journal of Medical Microbiology
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Due to the limited data output the actual used system is not suitable for in-depth-investigation of 16S amplicon sequencing of metagenomes. ...
For use in remote areas further improvements are needed to unbind the base-calling from "the cloud". ...
Our data support the need for systematic analyses regarding the development of resistance against echinocandins in Candida spp. ...
doi:10.1016/j.ijmm.2015.09.002
fatcat:yuxjcmjr4ffapmmbe54v2jofxy