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Figure 1 | BMC Bioinformatics

Figure 1

From: A context-based approach to identify the most likely mapping for RNA-seq experiments

Figure 1

Outline of the ContextMap. ContextMap takes as input initial alignments provided either by other mapping tools such as e.g. TopHat or MapSplice or by a genome or transcriptome alignment. As output unique locations are provided for all reads that can be mapped. ContextMap involves three steps which are explained in more detail in Figures 2-3: (1) Identification of contexts (see Figure 2A); (2) Extension of initial alignments (Figure 2B-C); (3) Resolution of ambiguities (Figure 3).

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