PolyAtailor: PolyAtailor

In XHWUlab/PolyAtailor: a toolkit for analyzing poly(A) tail length dynamics from xxx RNA-seq data

Description

This package provides functions for identifying and quantifying poly(A) tails of full-length sequencing data from BAM files as well as difference significance detection.

Details

This package contains most of the functions required in poly(A) tail research, including tail recognition from sequence, tail length calculation, non-A base recognition and quantifying tail, PA site determination, tail length difference significance detection, basic data statistics, and so on.

References

Ye W, Liu T, Fu H, et al. movAPA: Modeling and visualization of dynamics of alternative polyadenylation across biological samples[J]. Bioinformatics, 2021, 37(16): 2470-2472. Liu Y, Nie H, Liu H, et al. Poly (A) inclusive RNA isoform sequencing (PAIso− seq) reveals wide-spread non-adenosine residues within RNA poly (A) tails[J]. Nature communications, 2019, 10(1): 1-13. Legnini I, Alles J, Karaiskos N, et al. FLAM-seq: full-length mRNA sequencing reveals principles of poly (A) tail length control[J]. Nature methods, 2019, 16(9): 879-886.

XHWUlab/PolyAtailor documentation built on Dec. 28, 2021, 12:13 a.m.