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Correction: MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts

The Original Article was published on 14 January 2022

Correction to: BMC Bioinformatics (2022) 23:39 https://doi.org/10.1186/s12859-021-04544-3

Following the publication of the original article [1], the authors identified an error in Fig. 2 and caption 2c. The correct figure is given below, and the caption has been updated from ‘’Reads ri (i = 1, 10)’’ to ‘’ Reads ri (i = 1, 11).’’

Fig. 2
figure 2

MGcount strategy. a MGcount takes a set of genomic alignments (BAM files) and a GTF RNA feature annotations file as inputs. The algorithm assigns reads hierarchically and then models multi-mapping assignments in a graph using the Rosvall’s map equation [36, 37]. As output, MGcount provides an RNA expression count matrix (where feature communities are collapsed as new defined features), a feature metadata table and the graphs. b Illustration of how the hierarchical assignation can resolve multi-overlappers: reads that map to small-RNA and long-RNA features are assigned to small-RNA in the first round; reads that map to long-RNA introns and long-RNA exons are assigned to long-RNA exons in the second round; remaining reads are assigned in the last round. c Illustration of multi-mapping small-RNA and long-RNA exon graphs generation by MGcount. Reads ri (i = 1, 11) have been hierarchically assigned to S1, S2, S3, S4, S5 (small-RNA biotypes, yellow), and G1, G2 (long-RNA biotypes, blue). Each vertex in the directional multi-mapping graphs (right) corresponds to a feature and has a size proportional to the logarithm of the number of alignments. Edges connect vertices with common multi-mapping reads, with weights proportional to the number of common multi-mappers normalized by the total number of alignments of the source vertex. Hence, the weight of the edge connecting S1 with S2 becomes 3/4 (reads mapping both S1 and S2 divided by reads aligned to S1). (CB: Cell Barcode, UMI: Unique Molecular Identifier)

The original article [1] has been corrected.

Reference

  1. Hita, et al. MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts. BMC Bioinformatics. 2022;23:39. https://doi.org/10.1186/s12859-021-04544-3.

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Correspondence to Sol Schvartzman.

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Hita, A., Brocart, G., Fernandez, A. et al. Correction: MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts. BMC Bioinformatics 23, 209 (2022). https://doi.org/10.1186/s12859-022-04725-8

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