Converting a SAM file to a FASTQ with bamtools

We can generate one (single-end) or two (paired-end) FastaQ files from a BAM file using bamtools.

bamtools convert 
    -in qG130062.chr22.bam 
    -format fastq > qG130062.chr22.fastq
Advertisements

Leave a Reply

Fill in your details below or click an icon to log in:

WordPress.com Logo

You are commenting using your WordPress.com account. Log Out / Change )

Twitter picture

You are commenting using your Twitter account. Log Out / Change )

Facebook photo

You are commenting using your Facebook account. Log Out / Change )

Google+ photo

You are commenting using your Google+ account. Log Out / Change )

Connecting to %s

%d bloggers like this: