I tried to use poretoos to convert fast5 to fasta file but the below command did not create any file
> poretools fasta --type best 15
> poretools fasta --type best 15/*
> poretools fasta --type best 15/*.fast5
What did I miss you?
Thank you in advance,
How did you obtain these fast5 files? Are those basecalled?
By the way, since the basecallers can output fastq directly
poretools
is, well, obsolete now.We ask sequence company to sequence our genome. Is there any other software available?
Then you could ask that company what they send you: raw or base called fast5. Or you could share one fast5 file with me/us and I can have a look. In any case, you can do the basecalling yourself, using
albacore
, which you can get from the nanopore community forum.