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public:spia_manual [2013/04/20 10:39] f.demichelis@unitn.it |
public:spia_manual [2013/04/20 14:50] (current) davide.prandi@unitn.it |
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| === Example === | === Example === | ||
| - | The package {{:spia.zip|SPIA}} contains a directory Bin with the SPIA.R and the file SPIAfunctions.R with the SPIA functions. The package also comes with a ready to use example folder Example. The folder contains a SPIa config file SPIA.configFile.R, a vcf file CEU.exon.2010_03.genotypes.143SNPs.vcf, and a list of one VCF file named 1000G.CEU.exon.vcfList.txt. To test SPIA unzip spia.zip package, enter into the folder SPIA, and type | + | The package {{:spia.zip|SPIA}} contains a directory Bin with the SPIA.R and the file SPIAfunctions.R with the SPIA functions. The package also comes with a ready to use example folder Example. The folder contains a SPIa config file SPIA.configFile.R, a vcf file CEU.exon.2010_03.genotypes.143SNPs.vcf, and a list of one VCF file named 1000G.CEU.exon.vcfList.txt. To test SPIA unzip spia.zip package, enter into the folder SPIA, and type\\ |
| - | ''./Bin/SPIA.R ./Example/SPIA.configFile.R'' | + | ./Bin/SPIA.R ./Example/SPIA.configFile.R |
| If SPIA successfully complete the analysis you will find two more files within the Example folder:\\ | If SPIA successfully complete the analysis you will find two more files within the Example folder:\\ | ||
| Line 95: | Line 95: | ||
| 1000G.CEU.exon.vcfList.SPIAplot.pdf\\ | 1000G.CEU.exon.vcfList.SPIAplot.pdf\\ | ||
| that represent the tabular and graphical output of SPIA, respectively. | that represent the tabular and graphical output of SPIA, respectively. | ||
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