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<tt>edgeR</tt> : a Bioconductor package for differential expression analysis of digital gene expression data

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limma powers differential expression analyses for RNA-sequencing and microarray studies

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MultiQC: summarize analysis results for multiple tools and samples in a single report

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voom: precision weights unlock linear model analysis tools for RNA-seq read counts

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Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

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