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yjx1217 / NanoTrans

An integrated computational framework for comprehensive transcriptome analyses with Nanopore direct-RNA sequencing data
MIT License
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cDNA sequencing #1

Open sagnikbanerjee15 opened 1 year ago

sagnikbanerjee15 commented 1 year ago

Hello,

Can the same pipeline be used for cDNA sequencing as well? I have the fastq reads and the reference genome and transcriptome fasta sequences.

Thank you.

yjx1217 commented 1 year ago

Hi, module 04 (RNA modification) and module 05 (polyA tail length) requires direct-RNA sequencing reads in fast5 format, whereas other modules should still work for cDNA sequencing fastq reads in theory (although I have not tested).

Best, Jia-Xing