AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc]
Automated Genomics Analysis (AGA) is an interactive program to analyze high-throughput genomic data sets on a variety of platforms. An easy to use, point and click, guided pipeline is implemented to combine, define, and compare datasets, and customize their outputs. In contrast to other automated pr...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
F1000 Research Ltd
2015-01-01
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| Series: | F1000Research |
| Subjects: | |
| Online Access: | http://f1000research.com/articles/4-28/v1 |
| _version_ | 1819061640625127424 |
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| author | Michael Considine Hilary Parker Yingying Wei Xaio Xia Leslie Cope Michael Ochs Elana Fertig |
| author_facet | Michael Considine Hilary Parker Yingying Wei Xaio Xia Leslie Cope Michael Ochs Elana Fertig |
| author_sort | Michael Considine |
| collection | DOAJ |
| description | Automated Genomics Analysis (AGA) is an interactive program to analyze high-throughput genomic data sets on a variety of platforms. An easy to use, point and click, guided pipeline is implemented to combine, define, and compare datasets, and customize their outputs. In contrast to other automated programs, AGA enables flexible selection of sample groups for comparison from complex sample annotations. Batch correction techniques are also included to further enable the combination of datasets from diverse studies in this comparison. AGA also allows users to save plots, tables and data, and log files containing key portions of the R script run for reproducible analyses. The link between the interface and R supports collaborative research, enabling advanced R users to extend preliminary analyses generated from bioinformatics novices. |
| first_indexed | 2024-12-21T14:46:06Z |
| format | Article |
| id | doaj.art-7049af36c6b74e419d35124f0a8d7ed2 |
| institution | Directory Open Access Journal |
| issn | 2046-1402 |
| language | English |
| last_indexed | 2024-12-21T14:46:06Z |
| publishDate | 2015-01-01 |
| publisher | F1000 Research Ltd |
| record_format | Article |
| series | F1000Research |
| spelling | doaj.art-7049af36c6b74e419d35124f0a8d7ed22022-12-21T19:00:01ZengF1000 Research LtdF1000Research2046-14022015-01-01410.12688/f1000research.6030.16456AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc]Michael Considine0Hilary Parker1Yingying Wei2Xaio Xia3Leslie Cope4Michael Ochs5Elana Fertig6Department of Oncology Biostatistics & Bioinformatics, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USADepartment of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, 21205, USADepartment of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, 21205, USADepartment of Statistics and Biostatistics, Rutgers University, New Brunswick, NJ, 08901, USADepartment of Oncology Biostatistics & Bioinformatics, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USADepartment of Mathematics and Statistics, The College of New Jersey, Ewing Township, NJ, 08618, USADepartment of Oncology Biostatistics & Bioinformatics, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USAAutomated Genomics Analysis (AGA) is an interactive program to analyze high-throughput genomic data sets on a variety of platforms. An easy to use, point and click, guided pipeline is implemented to combine, define, and compare datasets, and customize their outputs. In contrast to other automated programs, AGA enables flexible selection of sample groups for comparison from complex sample annotations. Batch correction techniques are also included to further enable the combination of datasets from diverse studies in this comparison. AGA also allows users to save plots, tables and data, and log files containing key portions of the R script run for reproducible analyses. The link between the interface and R supports collaborative research, enabling advanced R users to extend preliminary analyses generated from bioinformatics novices.http://f1000research.com/articles/4-28/v1BioinformaticsGenomics |
| spellingShingle | Michael Considine Hilary Parker Yingying Wei Xaio Xia Leslie Cope Michael Ochs Elana Fertig AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] F1000Research Bioinformatics Genomics |
| title | AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] |
| title_full | AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] |
| title_fullStr | AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] |
| title_full_unstemmed | AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] |
| title_short | AGA: Interactive pipeline for reproducible genomics analyses [v1; ref status: indexed, http://f1000r.es/4zc] |
| title_sort | aga interactive pipeline for reproducible genomics analyses v1 ref status indexed http f1000r es 4zc |
| topic | Bioinformatics Genomics |
| url | http://f1000research.com/articles/4-28/v1 |
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