WGS .fsa_nt file to .fastq.gz

Question

[nidhiv]

I would like to convert the .fsa_nt file to a fastq.gz file in order to use it in Velvet.

Any help appreciated. Thanks!

Answer 1

[GenoMax]

If this is a multi-fasta format sequence file then you can use reformat.sh from BBMap suite to convert it to fastq (albeit with fake q-scores, 35 in example below) like so:

reformat.sh in=test.fa out=fake.fq.gz qfake=35

Note: SourceForge site appears to be offline at this time. Once it returns you can download BBMap.

Answer 2

[harold.smith.tarheel]

See this earlier post: Convert FASTA to FASTQ