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Fig. 6 | BMC Bioinformatics

Fig. 6

From: misFinder: identify mis-assemblies in an unbiased manner using reference and paired-end reads

Fig. 6

Visualization of misFinder output for identifying assembly errors on selected 10 scaffolds of most errors for S.pombe real data. The running results of misFinder are shown using Circos [30]. The ideogram (green) shows the circularized selected scaffolds. The scatter plot shows the marked assembly errors (red circles for misjoins, orange circles for indel errors) and correct assemblies (blue circles for correct indels, green circles for false misjoins) corresponding to structural variations identified by misFinder. The disagreement plot marks the disagreement for each base in scaffolds. The zero coverage plot marks each nucleotide with zero coverage. The multi-align ratio plot shows the ratio of multiple aligned reads for each region of 500 bp, ranging from 0 to 1. The discordant ratio plot shows the discordant ratio of discordant read pairs for each 500-bp region in scaffolds, ranging from 0 to 1. The last plot shows the read coverage in scaffolds. a, b show zoomed regions in the figure. a An identified assembly error of 55 bp deletion error in scaffolds was visualized using ACT (I) and IGV (II). b A detected correct assembly corresponding to structural variation of 3 kbp copy number variation in scaffolds was visualized using ACT (I) and IGV (II)

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