Skip to content
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.

Sign up for GitHub

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

Jump to bottom

MSI with Illumina paired end data #6

Closed
Lveillat opened this issue Feb 14, 2023 · 1 comment
Closed

MSI with Illumina paired end data #6

Lveillat opened this issue Feb 14, 2023 · 1 comment
Assignees
@nunofonseca
Labels
question Further information is requested

Comments

@Lveillat
Copy link

Hello,
Is it possible to use the MSI tool with Illumina paired-end data? If so, how should we proceed ?
Thank you.
@nunofonseca nunofonseca self-assigned this Mar 25, 2023
@nunofonseca
Copy link
Owner

Hi,
MSI was designed for long reads therefore it will not work with paired-end data.
However, if you really want to try MSI on your data then the paired reads would have to be merged before being provided to msi (as single reads). There are several tools available to merge reads: https://www.biostars.org/p/225683/
Cheers.

@nunofonseca nunofonseca added the question Further information is requested label Apr 7, 2023
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@nunofonseca nunofonseca

Labels
question Further information is requested
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@nunofonseca @Lveillat