Hello everyone,
I am trying to do assembly and annotation for oxford nanopore data, bacterial genome (have multiple .fast5 and fastq files with me). For this, I am referring to this link: https://angus.readthedocs.io/en/2017/analyzing_nanopore_data.html
So, according to steps given I am trying to convert multiple .fast5 files into a .fastq file. I tried,
1. poretools fastq $directory > data.fastq
2. poretools fastq ./*.fast5 > data.fastq (from usage examples for poretools: https://poretools.readthedocs.io/en/latest/content/examples.html)
but, this gives me an empty .fastq file. So I tried test data given on the link that I am referring to as input to poretools, it works well. I am not getting that, why any command for poretools is not working for my data, also it doesn't give any error. I also have multiple .fastq files with me, but not sure how to proceed for assembly and annotation.
Can anyone please help?
Thank you!