Maybe whatever version of samtools you have doesn't support that. If you run
samtools with no arguments it will give you a similar list showing the commands
it supports.
Bob H
On Jan 14, 2016, at 10:05 AM, carol white wrote:
> Hi,
> It might be trivial but I tried to use
> samtools fastq bamFile
>
> and got
>
> [main] unrecognized command 'fastq'
>
> Can samtools fastq be invoked as it is or should the doc
> http://www.htslib.org/doc/samtools.html have been understood differently?
>
> Regards,
>
> Carol
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