New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

fastqtobam or sam #928

Closed
ankushreddy opened this Issue Feb 1, 2016 · 1 comment

Comments

Projects
None yet
2 participants
@ankushreddy

ankushreddy commented Feb 1, 2016

Hi Team,
Is there any way that we can convert fast1to bam or sam. I have seen that there is adamtofastq.

Thanks &Regards,
Ankush Reddy.

@fnothaft

This comment has been minimized.

Show comment
Hide comment
@fnothaft

fnothaft Feb 1, 2016

Member

The transform command will load FASTQ as input and can save to SAM/BAM. However, this will produce a SAM/BAM file that contains only unaligned reads. To align FASTQ, use a tool like bwa or SNAP.

Member

fnothaft commented Feb 1, 2016

The transform command will load FASTQ as input and can save to SAM/BAM. However, this will produce a SAM/BAM file that contains only unaligned reads. To align FASTQ, use a tool like bwa or SNAP.

@fnothaft fnothaft closed this Feb 1, 2016

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment