PolyA tail trimming in Nanopore Direct RNA Sequencing reads

Question

[baibhu1234]

Hello everyone,

I am working with Nanopore DRS data and trying to find out the Alternative Polyadenylation between samples.

For better alignment I have to go for polya tail trimming of the reads, but they dont have consistent A tails as we see in NGS reads. Can anyone suggest how to go for trimming of the DRS reads.

Answer 1

[GenoMax]

You should be able to use fastplong (LINK) or new polyfilter.sh tool from BBMap suite (New Illumina error mode, new BBTools release (39.09) to deal with it )