Mercurial > repos > saket-choudhary > eqtl_tools
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author | Saket Choudhary<saketkc@gmail.com> |
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date | Thu, 20 Jun 2013 18:27:10 +0530 |
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children | bef89654259a |
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This is a wrapper for a set of eQTL analysis tools. Though, currently only PANAMA is supported. PANAMA takes in input as : $panama expression_data.csv snp_data.csv Where expression_data.csv is a Comma Separated Values file containing the gene expression data in the following format: sample1, sample2, ..., sampleN gene1 value , value , ..., value gene2 value , value , ..., value ... geneN and snp_data.csv contains the SNP data encoded as [0,1,2] in the following format: sample1, sample2, ..., sampleN SNP1 value , value , ..., value SNP2 value , value , ..., value ... SNPQ Make sure panama is installed and available on your path for all nodes. Move the test-data files to your galaxy root test-data folder and create a directory galaxy-central/tools/eqtl_tools and put the panama_run.py and panama.xml files inside eqtl_tools directory.