GPFrontend and GPGraphics: graphical analysis tools for genetic association studies
<p>Abstract</p> <p>Background</p> <p>Most software packages for whole genome association studies are non-graphical, purely text based programs originally designed to run with UNIX-like operating systems. Graphical output is often not intended or supposed to be performed...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2010-09-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/11/472 |
| _version_ | 1818916429147144192 |
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| author | Schanze Denny Krumbiegel Mandy Pasutto Francesca Uebe Steffen Ekici Arif B Reis André |
| author_facet | Schanze Denny Krumbiegel Mandy Pasutto Francesca Uebe Steffen Ekici Arif B Reis André |
| author_sort | Schanze Denny |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Most software packages for whole genome association studies are non-graphical, purely text based programs originally designed to run with UNIX-like operating systems. Graphical output is often not intended or supposed to be performed with other command line tools, e.g. gnuplot.</p> <p>Results</p> <p>Using the Microsoft .NET 2.0 platform and Visual Studio 2005, we have created a graphical software package to analyze data from microarray whole genome association studies, both for a DNA-pooling based approach as well as regular single sample data. Part of this package was made to integrate with GenePool 0.8.2, a previously existing software suite for GNU/Linux systems, which we have modified to run in a Microsoft Windows environment. Further modifications cause it to generate some additional data. This enables GenePool to interact with the .NET parts created by us. The programs we developed are GPFrontend, a graphical user interface and frontend to use GenePool and create metadata files for it, and GPGraphics, a program to further analyze and graphically evaluate output of different WGA analysis programs, among them also GenePool.</p> <p>Conclusions</p> <p>Our programs enable regular MS Windows users without much experience in bioinformatics to easily visualize whole genome data from a variety of sources.</p> |
| first_indexed | 2024-12-20T00:18:02Z |
| format | Article |
| id | doaj.art-7a61a81a60a24903849d7983f2695b44 |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-20T00:18:02Z |
| publishDate | 2010-09-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-7a61a81a60a24903849d7983f2695b442022-12-21T20:00:16ZengBMCBMC Bioinformatics1471-21052010-09-0111147210.1186/1471-2105-11-472GPFrontend and GPGraphics: graphical analysis tools for genetic association studiesSchanze DennyKrumbiegel MandyPasutto FrancescaUebe SteffenEkici Arif BReis André<p>Abstract</p> <p>Background</p> <p>Most software packages for whole genome association studies are non-graphical, purely text based programs originally designed to run with UNIX-like operating systems. Graphical output is often not intended or supposed to be performed with other command line tools, e.g. gnuplot.</p> <p>Results</p> <p>Using the Microsoft .NET 2.0 platform and Visual Studio 2005, we have created a graphical software package to analyze data from microarray whole genome association studies, both for a DNA-pooling based approach as well as regular single sample data. Part of this package was made to integrate with GenePool 0.8.2, a previously existing software suite for GNU/Linux systems, which we have modified to run in a Microsoft Windows environment. Further modifications cause it to generate some additional data. This enables GenePool to interact with the .NET parts created by us. The programs we developed are GPFrontend, a graphical user interface and frontend to use GenePool and create metadata files for it, and GPGraphics, a program to further analyze and graphically evaluate output of different WGA analysis programs, among them also GenePool.</p> <p>Conclusions</p> <p>Our programs enable regular MS Windows users without much experience in bioinformatics to easily visualize whole genome data from a variety of sources.</p>http://www.biomedcentral.com/1471-2105/11/472 |
| spellingShingle | Schanze Denny Krumbiegel Mandy Pasutto Francesca Uebe Steffen Ekici Arif B Reis André GPFrontend and GPGraphics: graphical analysis tools for genetic association studies BMC Bioinformatics |
| title | GPFrontend and GPGraphics: graphical analysis tools for genetic association studies |
| title_full | GPFrontend and GPGraphics: graphical analysis tools for genetic association studies |
| title_fullStr | GPFrontend and GPGraphics: graphical analysis tools for genetic association studies |
| title_full_unstemmed | GPFrontend and GPGraphics: graphical analysis tools for genetic association studies |
| title_short | GPFrontend and GPGraphics: graphical analysis tools for genetic association studies |
| title_sort | gpfrontend and gpgraphics graphical analysis tools for genetic association studies |
| url | http://www.biomedcentral.com/1471-2105/11/472 |
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