tailfindr: Alignment-free poly(A) length measurement for Oxford Nanopore RNA and DNA sequencing

Maximilian Krause; Adnan M. Niazi; Kornel Labun; Yamila N. Torres Cleuren; Florian S. Müller; Eivind Valen

. CC-BY-NC-ND 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not . https://doi.org/10.1101/588343 doi: bioRxiv preprint . CC-BY-NC-ND 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not . https://doi.org/10.1101/588343 doi: bioRxiv preprint A B F I G U R E S 3 | Example data output from tailfindr on DNA sequencing data S3A Tabular output containing the unique ONT read ID, read orientation (read_type), tail start and end coordinates, the normaliser (samples_per_nt) and the calculated tail length in nt (tail_length), among others. S3B Example debugging plots that can be optionally generated by tailfindr for highlighting the poly(A)/(T) sections. Displayed is a poly(T) stretch of eGFP PCR-DNA basecalled with standard model. Top panel shows the total raw data with highlighted poly(T) tail section (red). Middle panel shows calculated signal derivatives used to define the poly(T) tail boundaries for debugging purposes. Bottom panel displays detected moves as recorded by the basecaller (green). Important to notice is a small signal spike in the raw data that tailfindr allows to be included in the full poly(T) tail.