APAlog
Bioc removedAnalysis of alternative poly A site usage
Release Lineage
Release history unavailable.
Description
Many trancripts in human and other organisms have multiple potential poly A sites. Selection of different poly A sites affects the composition of 3' UTR and the the regulatory elements it contains, and may impact several aspects of mRNA life cycle e.g. stability and translation rate. The APAlog package tests the significance of differential poly A site usage for each transcript across samples. The source of input data can be a 3' sequencing protocol e.g. Tag-Seq or QuantSeq, or regular RNA-seq with an annotation file. Three modes of analysis are offered: Overall transcript-wise test to evaluate the existence of differential pA usage, pairwise comparison of all pA sites of a transcript, or setting one pA site as the canonical or reference site and comparing every other pA site to this reference.
Call graph
Open call graph →Code intelligence has not been computed for this package yet.
Code
Code metrics have not been computed for this package yet.
Topics
People
- Sohit Miglani maintainer
- Hossein Asgharian author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("APAlog")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.