Analysis of genome-scale count data in Bioconductor
Analysis of genome-scale count data in Bioconductor
Analysis of genome-scale count data in Bioconductor
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The adjustment to <strong>data</strong> analysis isstraightforward• Assumption: core set <strong>of</strong> genes that do notchange <strong>in</strong> expression.• Pick a reference sample, compute trimmedmean <strong>of</strong> M-values (TMM) to reference• LTM( [Y gk /M k ] / [Y gk’ /M k’ ] ) estimates S k’ /S k• Adjustment to statistical analysis:– Use “effective” library size (edgeR)– Use additional <strong>of</strong>fset (GLM)
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