Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: StarCluster

https://packages.ecosyste.ms/registries/pypi.org/packages/StarCluster

StarCluster is a utility for creating and managing computing clusters hosted on Amazon's Elastic Compute Cloud (EC2).
24 versions
Latest release: almost 10 years ago
244 downloads last month

Papers Mentioning StarCluster 23

10.1093/gigascience/giy052

Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files
Cited by: 3
Author(s): Xiaobo Sun, Jingjing Gao, Peng Jin, Celeste Eng, Esteban G. Burchard, Terri H. Beaty, Ingo Ruczinski, Rasika A. Mathias, Kathleen C. Barnes, Fusheng Wang, Zhaohui S. Qin
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.11237

NGScloud2: optimized bioinformatic analysis using Amazon Web Services
Cited by: 4
Author(s): Fernando Mora‐Márquez, José Luis Vázquez-Poletti, Unai López de Heredia
Software Mentions: 5
Published: over 3 years ago

10.1186/s12864-016-3118-z

Web-based bioinformatics workflows for end-to-end RNA-seq data computation and analysis in agricultural animal species
Cited by: 10
Author(s): Weizhong Li, René Richter, Yunsup Jung, Quanyin Zhu, Robert W. Li
Software Mentions: 5
Published: almost 8 years ago

10.1155/2013/791051

Streaming Support for Data Intensive Cloud-Based Sequence Analysis
Cited by: 7
Author(s): Shady Issa, Romeo Kienzler, Mohamed El‐Kalioby, Peter J. Tonellato, Dennis P. Wall, Rémy Bruggmann, Mohamed Abouelhoda
Software Mentions: 4
Published: over 11 years ago

10.1186/1471-2105-13-S17-S22

Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package
Cited by: 20
Author(s): Mohamed El‐Kalioby, Mohamed Abouelhoda, Jan Walters Kruger, Robert Giegerich, Alexander Sczyrba, Dennis P. Wall, Peter J. Tonellato
Software Mentions: 4
Published: almost 12 years ago

10.1093/gigascience/gix042

Kronos: a workflow assembler for genome analytics and informatics
Cited by: 5
Author(s): Mohammad Jafar Taghiyar, Jamie Rosner, Diljot Grewal, Bruno M. Grande, Radhouane Aniba, Jasleen K. Grewal, Paul C. Boutros, Ryan D. Morin, Ali Bashashati, Sohrab P. Shah
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-020-74823-1

Predicting human health from biofluid-based metabolomics using machine learning
Cited by: 15
Author(s): Ethan D. Evans, Claire Duvallet, Nathaniel D. Chu, Michael Oberst, Michael Murphy, Isaac Rockafellow, David Sontag, Eric J. Alm
Software Mentions: 3
Published: almost 4 years ago

10.1186/1471-2105-13-315

CloudMan as a platform for tool, data, and analysis distribution
Cited by: 41
Author(s): Enis Afgan, Brad Chapman, James Taylor
Software Mentions: 3
Published: almost 12 years ago

10.1093/bioinformatics/btu595

BigDataScript: a scripting language for data pipelines
Cited by: 29
Author(s): Pablo Cingolani, Robert Sladek, Mathieu Blanchette
Software Mentions: 3
Published: about 10 years ago

10.7717/peerj.545

Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences
Cited by: 469
Author(s): Jai Ram Rideout, Yan He, José A. Navas-Molina, William A. Walters, Luke K. Ursell, Sean M. Gibbons, John Chase, Daniel McDonald, Antonio González, Adam Robbins‐Pianka, José C. Clemente, Jack A. Gilbert, Susan M. Huse, Hong Zhou, Rob Knight, J. Gregory Caporaso
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0135800

ExScalibur: A High-Performance Cloud-Enabled Suite for Whole Exome Germline and Somatic Mutation Identification
Cited by: 12
Author(s): Riyue Bao, Kyle M. Hernandez, Lei Huang, Wenjun Kang, Elizabeth T. Bartom, Kenan Onel, Samuel L. Volchenboum, Jorge Andrade
Software Mentions: 3
Published: about 9 years ago

10.1186/s12920-015-0134-9

Scalable and cost-effective NGS genotyping in the cloud
Cited by: 20
Author(s): Yassine Souilmi, Alex K. Lancaster, Jae-Yoon Jung, Ettore Rizzo, Joseph E. Hawkins, Ryan L. Powles, Saaïd Amzazi, Hassan Ghazal, Peter J. Tonellato, Dennis P. Wall
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0167994

Discovering Genome-Wide Tag SNPs Based on the Mutual Information of the Variants
Cited by: 6
Author(s): Abdulkadir Elmas, Tai-Hsien Ou Yang, Xiaodong Wang, Dimitris Anastassiou
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0091240

High Precision Prediction of Functional Sites in Protein Structures
Cited by: 15
Author(s): Ljubomir Buturović, Mike Wong, Gale L. Tang, Russ B. Altman, Dragutin Petković
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0102642

Bioinformatics on the Cloud Computing Platform Azure
Cited by: 28
Author(s): H. P. Shanahan, Anne M. Owen, Andrew Harrison
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2105-12-356

CloVR: A virtual machine for automated and portable sequence analysis from the desktop using cloud computing
Cited by: 260
Author(s): Samuel V. Angiuoli, Malcolm Matalka, Aaron Gussman, Kevin Galens, Mahesh Vangala, David R. Riley, Cesar Arze, James R. White, Owen White, W. Florian Fricke
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0029850

Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines
Cited by: 23
Author(s): Philippe Chouvarine, Amanda M. Cooksey, Fiona M. McCarthy, David A. Ray, Brian S. Baldwin, Shane C. Burgess, Daniel G. Peterson
Software Mentions: 1
Published: over 12 years ago

10.3389/fimmu.2018.01613

Circulating T Cell Subpopulations Correlate With Immune Responses at the Tumor Site and Clinical Response to PD1 Inhibition in Non-Small Cell Lung Cancer
Cited by: 75
Author(s): Nataly Manjarrez‐Orduño, Laurence Ménard, Selena Kansal, Paul Fischer, Bijal Kakrecha, Can Jiang, Mark D. Cunningham, Danielle M. Greenawalt, Vishal Patel, Ming-Hui Yang, Ryan Golhar, Julie A. Carman, Sergey Lezhnin, Hongyue Dai, Paul S. Kayne, Suzanne J. Suchard, Steven H. Bernstein, Steven G. Nadler
Software Mentions: 1
Published: about 6 years ago

10.1016/S2468-2667(17)30238-4

Effect of HPV vaccination and cervical cancer screening in England by ethnicity: a modelling study
Cited by: 26
Author(s): Helen Johnson, Erin I. Lafferty, Rosalind M Eggo, Karly S. Louie, Kate Soldan, Jo Waller, W. John Edmunds
Software Mentions: 1
Published: over 6 years ago

10.1186/s12859-016-1454-2

MC-GenomeKey: a multicloud system for the detection and annotation of genomic variants
Cited by: 9
Author(s): Hatem Elshazly, Yassine Souilmi, Peter J. Tonellato, Dennis P. Wall, Mohamed Abouelhoda
Software Mentions: 1
Published: over 7 years ago

10.1093/molbev/msu046

Emergence and Evolutionary Analysis of the Human DDR Network: Implications in Comparative Genomics and Downstream Analyses
Cited by: 22
Author(s): Aída Arcas, Óscar Fernández-Capetillo, Ildefonso Cases, Ana M. Rojas
Software Mentions: 1
Published: over 10 years ago

10.1155/2013/398968

Cloud Prediction of Protein Structure and Function with PredictProtein for Debian
Cited by: 18
Author(s): László Kaján, Guy Yachdav, Esmeralda Vicedo, Martin Steinegger, Milot Mirdita, Christof Angermüller, Ariane Böhm, Simon Domke, Julia Ertl, Christian Mertes, Eva Reisinger, Cedric Staniewski, Burkhard Rost
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pcbi.1002147

Biomedical Cloud Computing With Amazon Web Services
Cited by: 114
Author(s): Vincent A. Fusaro, Prasad Patil, Erik Gafni, Dennis P. Wall, Peter J. Tonellato
Software Mentions: 1
Published: about 13 years ago