Author: Maximilian Krause; Adnan M. Niazi; Kornel Labun; Yamila N. Torres Cleuren; Florian S. Müller; Eivind Valen
Title: tailfindr: Alignment-free poly(A) length measurement for Oxford Nanopore RNA and DNA sequencing Document date: 2019_3_25
ID: cq7g8azh_32
Snippet: The rough start and end are refined by first calculating a mean signal of the processed raw data contained between these boundaries through a moving average filter (window size 25; stride 25). Next, the slope of this mean signal is calculated between each two consecutive points. The boundaries of the longest continuous stretch of low-slope values (confined within bounds of +0.3 and -0.3 of slope signal) between the rough poly(A) start and end bou.....
Document: The rough start and end are refined by first calculating a mean signal of the processed raw data contained between these boundaries through a moving average filter (window size 25; stride 25). Next, the slope of this mean signal is calculated between each two consecutive points. The boundaries of the longest continuous stretch of low-slope values (confined within bounds of +0.3 and -0.3 of slope signal) between the rough poly(A) start and end boundaries are considered the precise boundaries (Fig. 1B) . The resulting poly(A) tail measurement in sample points is then normalised by the read-specific nucleotide translocation rate (see below).
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