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

How to produce RV=$tmp/${sample}_R1_filtered.final.fastq.gz #1

Open
xieduo7 opened this issue Oct 25, 2024 · 0 comments
Open

How to produce RV=$tmp/${sample}_R1_filtered.final.fastq.gz #1

xieduo7 opened this issue Oct 25, 2024 · 0 comments

Comments

@xieduo7
Copy link

xieduo7 commented Oct 25, 2024 •
edited
Loading

Hi @Zhiliang-Bai ,

Thanks for your code.

I am wondering how to generate RV=$tmp/${sample}_R1_filtered.final.fastq.gz from raw reads before running st_pipeline_run.py. Trimming read 1 with Cutadapt? I was confused because I saw thatst_pipeline_run.py can also trim the reads.

Thank you!

Best,
Duo
@xieduo7 xieduo7 changed the title The command used to trim read 1 using Cutadapt How to produce RV=$tmp/${sample}_R1_filtered.final.fastq.gz Oct 25, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@xieduo7