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Fig. 2 | Translational Neurodegeneration

Fig. 2

From: Analysis of human brain tissue derived from DBS surgery

Fig. 2

FIMM-RNAseq data analysis pipeline. FIMM-RNAseq incorporates quality control tools, such as FastQC and the pre-processing tool Trimgalore. It aligns RNA-seq reads using a STAR [14] aligner and performs gene quantification and transcript assembly using Subread [15] and StringTie [16], respectively. Extensive RNA-seq quality matrices are generated using RNASeQC [17], RseQC [18], dupRadar [19] and Preseq [20, 21]. An aggregated report from the major analysis steps is generated using MultiQC [22]. Exploratory data analysis is performed using R and edgeR [23]. As an optional component, the pipeline has the gene-fusion prediction tool Arriba [24]

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