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Fig. 8 | Genome Biology

Fig. 8

From: 2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing

Fig. 8

Annotation-aided two-pass alignment identifies novel splice isoforms in hen2-2 mutants. a Upset plot showing the intersection of splice junctions detected using nanopore DRS or Illumina RNAseq, and presence in the AtRTD2 annotation. Horizontal bars show the overall number of junctions detected using each technology/annotation, while stacked vertical bars represent set intersections. For nanopore DRS data, splice junctions with one or more supporting read alignment are shown. For Illumina RNAseq, splice junctions with ten or more supporting read alignments are shown. Nanopore DRS junctions which are classified as spurious by the two-pass filtering method are labeled in blue, while junctions which are classified as genuine are labeled in orange. Set intersection bars not including nanopore DRS are shown in gray. b, c Gene track showing novel splice isoforms detected at b AT1G19396 and c AT3G12140 in hen2-2 nanopore DRS data. AtRTD2 annotation is shown in black. Nanopore DRS reads are shown in blue (positive strand) or light blue (negative strand). Novel splice junctions are shown in orange

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Genome Biology

ISSN: 1474-760X

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