Tesdhi

What are the modification codes for various RNA modification

3

Hello! I'm currently using "modkit bedmethyl tobigwig" for my Nanopore direct RNA-seq datq. For the parameter "--mod-code", I didn't know the corresponding code that can represent different modifications (m5C, m6A_DRACH,...

How is the "probability_modified" from the "data.site_proba" calculated for each site

1

I have got a question about the output. How is the "probability_modified" from the "data.site_proba" file calculated for each site?

Is fastq file converted from "Dorado" unsorted bam by "samtools fastq" suitable for m6anet

2

> Hi Matthias (tagging you here @mocherry), > > > > 1. You can pass the `--emit-fastq` flag to `dorado basecaller`, which would emit a fastq file, this is sufficient...

I have got Nanopore directRNA-seq data using RNA004 kit, and it is basedcalled by Dorado. Can LAPA analyze Alternative polyadenylation for my data?

Hello @simoncchu, I am using xTea for to analyze LINE1 in my Nanopore direct DNA-seq data of human samples, Could I ask some questions? 1. The xTea uses "/home/ec2-user/rep_lib_annotation/consensus_mask_lrd/LINE1.fa" as...