Journal of Pathology Informatics Journal of Pathology Informatics
Contact us | Home | Login   |  Users Online: 179  Print this pageEmail this pageSmall font sizeDefault font sizeIncrease font size 


    Article Cited by others

TECHNICAL NOTE

Use of application containers and workflows for genomic data analysis

Schulz Wade L, Durant Thomas, Siddon Alexa J, Torres Richard

Year : 2016| Volume: 7| Issue : 1 | Page no: 53-53

   This article has been cited by
 
1 Containers in Bioinformatics: Applications, Practical Considerations, and Best Practices in Molecular Pathology
Sabah Kadri, Andrea Sboner, Alexandros Sigaras, Somak Roy
The Journal of Molecular Diagnostics. 2022;
[Pubmed]  [Google Scholar] [DOI]
2 Federated analysis of BRCA1 and BRCA2 variation in a Japanese cohort
James Casaletto, Michael Parsons, Charles Markello, Yusuke Iwasaki, Yukihide Momozawa, Amanda B. Spurdle, Melissa Cline
Cell Genomics. 2022; 2(3): 100109
[Pubmed]  [Google Scholar] [DOI]
3 Design considerations for workflow management systems use in production genomics research and the clinic
Azza E. Ahmed, Joshua M. Allen, Tajesvi Bhat, Prakruthi Burra, Christina E. Fliege, Steven N. Hart, Jacob R. Heldenbrand, Matthew E. Hudson, Dave Deandre Istanto, Michael T. Kalmbach, Gregory D. Kapraun, Katherine I. Kendig, Matthew Charles Kendzior, Eric W. Klee, Nate Mattson, Christian A. Ross, Sami M. Sharif, Ramshankar Venkatakrishnan, Faisal M. Fadlelmola, Liudmila S. Mainzer
Scientific Reports. 2021; 11(1)
[Pubmed]  [Google Scholar] [DOI]
4 An open-source python library for detection of known and novel Kell, Duffy and Kidd variants from exome sequencing
Celina Montemayor, Alexandra Simone, James Long, Oscar Montemayor, Bhavesh Delvadia, Robert Rivera, Katie L Lewis, Shahin Shahsavari, Divya Gandla, Katherine Dura, Uma S Krishnan, Nena C Wendzel, Nasha Elavia, Spencer Grissom, Panagiota Karagianni, Marina Bueno, Debrean Loy, Rizaldi Cacanindin, Steven McLaughlin, Maxim Tynuv, Patricia A R Brunker, John Roback, Sharon Adams, Harold Smith, Leslie Biesecker, Harvey G Klein
Vox Sanguinis. 2021; 116(4): 451
[Pubmed]  [Google Scholar] [DOI]
5 Approaches for containerized scientific workflows in cloud environments with applications in life science
Ola Spjuth, Marco Capuccini, Matteo Carone, Anders Larsson, Wesley Schaal, Jon Ander Novella, Oliver Stein, Morgan Ekmefjord, Paolo Di Tommaso, Evan Floden, Cedric Notredame, Pablo Moreno, Andreas Hellander, Payam Emami Khoonsari, Stephanie Herman, Kim Kultima, Samuel Lampa
F1000Research. 2021; 10: 513
[Pubmed]  [Google Scholar] [DOI]
6 Bridging the collaboration gap: Real-time identification of clinical specimens for biomedical research
ThomasJ S Durant, Guannan Gong, Nathan Price, WadeL Schulz
Journal of Pathology Informatics. 2020; 11(1): 14
[Pubmed]  [Google Scholar] [DOI]
7 META-pipe cloud setup and execution
Aleksandr Agafonov,Kimmo Mattila,Cuong Duong Tuan,Lars Tiede,Inge Alexander Raknes,Lars Ailo Bongo
F1000Research. 2018; 6: 2060
[Pubmed]  [Google Scholar] [DOI]
8 META-pipe cloud setup and execution
Aleksandr Agafonov,Kimmo Mattila,Cuong Duong Tuan,Lars Tiede,Inge Alexander Raknes,Lars Ailo Bongo
F1000Research. 2017; 6: 2060
[Pubmed]  [Google Scholar] [DOI]
9 A Review of Scalable Bioinformatics Pipelines
Bjørn Fjukstad,Lars Ailo Bongo
Data Science and Engineering. 2017;
[Pubmed]  [Google Scholar] [DOI]
10 Robust Cross-Platform Workflows: How Technical and Scientific Communities Collaborate to Develop, Test and Share Best Practices for Data Analysis
Steffen Möller,Stuart W. Prescott,Lars Wirzenius,Petter Reinholdtsen,Brad Chapman,Pjotr Prins,Stian Soiland-Reyes,Fabian Klötzl,Andrea Bagnacani,Matúš Kalaš,Andreas Tille,Michael R. Crusoe
Data Science and Engineering. 2017; 2(3): 232
[Pubmed]  [Google Scholar] [DOI]
11 Customized workflow development and data modularization concepts for RNA-Sequencing and metatranscriptome experiments
Steffen C. Lott,Markus Wolfien,Konstantin Riege,Andrea Bagnacani,Olaf Wolkenhauer,Steve Hoffmann,Wolfgang R. Hess
Journal of Biotechnology. 2017;
[Pubmed]  [Google Scholar] [DOI]
12 Reproducible Bioconductor workflows using browser-based interactive notebooks and containers
Reem Almugbel,Ling-Hong Hung,Jiaming Hu,Abeer Almutairy,Nicole Ortogero,Yashaswi Tamta,Ka Yee Yeung
Journal of the American Medical Informatics Association. 2017;
[Pubmed]  [Google Scholar] [DOI]

 

Read this article