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Figure 1 | BMC Genomics

Figure 1

From: Assessing the hodgepodge of non-mapped reads in bacterial transcriptomes: real or artifactual RNA chimeras?

Figure 1

Pipeline of the RNAseq data analysis. Two complementary approaches have been integrated to analyze the putative chimeric RNAs: i) mapping pair end mates as single end by using GEM-mapper and ii) mapping pair ends individually as single ends using Bowtie. After the two complementary mapping strategies there is a validation procedure that integrates three steps: i) determination of confidential scores that consider the levels of expression of the genes that originate the chimeric RNA; ii) filter by unique reads that considers the number of different reads that represent the chimeric junction and iii) filter by staircase profile that select for those chimeric variants that show a homogenous distribution of counts for the different reads that cover the junction.

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