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Fig. 5 | Genome Biology

Fig. 5

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

Fig. 5

Filtered two-pass alignment improves the identification and quantification of correct transcripts without a reference annotation. a Boxplots with overlaid strip-plots showing the percentage of alignments which map exactly to the splice junctions of the transcript from which they were simulated, for one-pass unguided minimap2 alignments, two-pass alignments using splice junctions filtered by decision trees one and two, and reference-annotation-guided minimap2 alignments. Reads were simulated from Arabidopsis TAIR10 + AtRTD2 (left) and human GRCh28 (right) nanopore DRS data. b Boxplots with overlaid strip-plots showing the Spearman’s correlation coefficient for actual transcript level counts from simulated data against counts produced by the alignment methods described in a. Reads were simulated from Arabidopsis (left) and human (right) nanopore DRS data aligned to the AtRTD2 and GRCh38 reference transcriptomes, respectively

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Genome Biology

ISSN: 1474-760X

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