How to convert FASTQ to FASTA
I downloaded a fastq.gz file from ENA browser but can't open it. How can I convert the file to fasta format? https://www.ebi.ac.uk/ena/browser/view/SRR16952091?show=reads
3 answers
Assuming you have done nothing else to the file you can use reformat.sh from BBMap suite.
reformat.sh -Xmx2g in=SRR16952091.fastq.gz out=SRR16952091.fasta
Output file will be in fasta format but uncompressed. So it will be significantly larger. To keep it compressed you can add .gz extension to fasta file name.
seqtk. https://github.com/lh3/seqtk
seqtk seq -a in.fq.gz > out.fa
You can also use Galaxy to convert your files [https://usegalaxy.org/]
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margarett •
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Can you elaborate on this?