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Fig. 1 | BMC Genomics

Fig. 1

From: P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads

Fig. 1

The main steps of P_RNA_scaffolder. Main steps of P_RNA_scaffolder. i) Paired-end reads (red) generated from transcripts (blue) are aligned to genomic fragments (orange). The arrows represent transcript orientation. We retained those pairs for which two ends are aligned to two contigs. ii) The pair is the connection evidence of two contigs. For each connection, we calculated the supporting evidence numbers of all connections. In one connection, two contigs are ordered based on their positions in the pairs and classified into the start and the end. iii) We select the optimal connection for each start contig and each end contig. The retained optimal connections are attributed into scaffolding paths

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