SNPTools: a software tool for visualization and analysis of microarray data | Zendy

Frank J. Sørensen | Zendy; Claus L. Andersen | Zendy; Carsten Wiuf | Zendy

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SNPTools: a software tool for visualization and analysis of microarray data

Author(s) -

Frank J. Sørensen,

Claus L. Andersen,

Carsten Wiuf

Publication year - 2007

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btm122

Subject(s) - wizard , software , visualization , computer science , data mining , microarray analysis techniques , data visualization , software tool , biology , programming language , operating system , gene , genetics , gene expression

We have created a software tool, SNPTools, for analysis and visualization of microarray data, mainly SNP array data. The software can analyse and find differences in intensity levels between groups of arrays and identify segments of SNPs (genes, clones), where the intensity levels differ significantly between the groups. In addition, SNPTools can show jointly loss-of-heterozygosity (LOH) data (derived from genotypes) and intensity data for paired samples of tumour and normal arrays. The output graphs can be manipulated in various ways to modify and adjust the layout. A wizard allows options and parameters to be changed easily and graphs replotted. All output can be saved in various formats, and also re-opened in SNPTools for further analysis. For explorative use, SNPTools allows various genome information to be loaded onto the graphs.

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