Using Lordec to correct Nanopore DRS reads

Question

[baibhu1234]

Hi everyone,

I am working with the DRS reads and wants to correct the reads using the short illumina reads. I am using the following command:

lordec-correct -2 c6r1_1.clean.fq, c6r1_2.clean.fq -k 19 -s 3 -i c6_r1_nanopore.fastq -T 64 -o c6_r1_corrected.fastq

As the illumina reads have "ATGC" and DRS reads have "AUGC", do I need to first convert the T->U or U->T before running lordec-correct?

[GenoMax]

lordec is from 2014 so it predates direct RNA sequencing. It is likely designed to work with DNA so you will have to make the change.

[baibhu1234]

I have also considered "proovread", but then again its from 2014.

Do you have any other suggestion for a suitable software to correct nanopore DRS reads?