SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments
<p>Abstract</p> <p>Background</p> <p>High throughput sequencing has become an increasingly important tool for biological research. However, the existing software systems for managing and processing these data have not provided the flexible infrastructure that research r...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2010-07-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/11/377 |
| _version_ | 1818916383232098304 |
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| author | Rovira Hector Ramsey Stephen A Marzolf Bruz Lin Jake Killcoyne Sarah Handcock Jeremy Cavnor Chris C Burdick David B Bressler Ryan Shmulevich Ilya Boyle John |
| author_facet | Rovira Hector Ramsey Stephen A Marzolf Bruz Lin Jake Killcoyne Sarah Handcock Jeremy Cavnor Chris C Burdick David B Bressler Ryan Shmulevich Ilya Boyle John |
| author_sort | Rovira Hector |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>High throughput sequencing has become an increasingly important tool for biological research. However, the existing software systems for managing and processing these data have not provided the flexible infrastructure that research requires.</p> <p>Results</p> <p>Existing software solutions provide static and well-established algorithms in a restrictive package. However as high throughput sequencing is a rapidly evolving field, such static approaches lack the ability to readily adopt the latest advances and techniques which are often required by researchers. We have used a loosely coupled, service-oriented infrastructure to develop SeqAdapt. This system streamlines data management and allows for rapid integration of novel algorithms. Our approach also allows computational biologists to focus on developing and applying new methods instead of writing boilerplate infrastructure code.</p> <p>Conclusion</p> <p>The system is based around the Addama service architecture and is available at our website as a demonstration web application, an installable single download and as a collection of individual customizable services.</p> |
| first_indexed | 2024-12-20T00:17:18Z |
| format | Article |
| id | doaj.art-c08ec746b8074acdb64c63dd24974ada |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-20T00:17:18Z |
| publishDate | 2010-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-c08ec746b8074acdb64c63dd24974ada2022-12-21T20:00:17ZengBMCBMC Bioinformatics1471-21052010-07-0111137710.1186/1471-2105-11-377SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experimentsRovira HectorRamsey Stephen AMarzolf BruzLin JakeKillcoyne SarahHandcock JeremyCavnor Chris CBurdick David BBressler RyanShmulevich IlyaBoyle John<p>Abstract</p> <p>Background</p> <p>High throughput sequencing has become an increasingly important tool for biological research. However, the existing software systems for managing and processing these data have not provided the flexible infrastructure that research requires.</p> <p>Results</p> <p>Existing software solutions provide static and well-established algorithms in a restrictive package. However as high throughput sequencing is a rapidly evolving field, such static approaches lack the ability to readily adopt the latest advances and techniques which are often required by researchers. We have used a loosely coupled, service-oriented infrastructure to develop SeqAdapt. This system streamlines data management and allows for rapid integration of novel algorithms. Our approach also allows computational biologists to focus on developing and applying new methods instead of writing boilerplate infrastructure code.</p> <p>Conclusion</p> <p>The system is based around the Addama service architecture and is available at our website as a demonstration web application, an installable single download and as a collection of individual customizable services.</p>http://www.biomedcentral.com/1471-2105/11/377 |
| spellingShingle | Rovira Hector Ramsey Stephen A Marzolf Bruz Lin Jake Killcoyne Sarah Handcock Jeremy Cavnor Chris C Burdick David B Bressler Ryan Shmulevich Ilya Boyle John SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments BMC Bioinformatics |
| title | SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments |
| title_full | SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments |
| title_fullStr | SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments |
| title_full_unstemmed | SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments |
| title_short | SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments |
| title_sort | seqadapt an adaptable system for the tracking storage and analysis of high throughput sequencing experiments |
| url | http://www.biomedcentral.com/1471-2105/11/377 |
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