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.

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

Adapters sequences seem not present #19

Open
PattSS opened this issue Oct 5, 2023 · 0 comments
Open

Adapters sequences seem not present #19

PattSS opened this issue Oct 5, 2023 · 0 comments

Comments

@PattSS
Copy link

PattSS commented Oct 5, 2023

Hi,

I am using gargammel to simulate paired-end ancient metagenomic data. I am able to create both pair1.fastq and pair2.fastq, however, when I run AdapterRemoval to remove the adapters from the simulated reads (fastq files), the program does not detect any adapter sequence. Is this normal?
The command I used is:
./gargammel.pl --comp 0.19,0.8,0.01 -n 5000000 -l 70 -rl 40 -damage 0.036,0.36,0.009,0.8 -ss HS20 -o simulation_data/ input_folder/

Also, it seems that by default gargammel.pl simulate amplicon data. Is there an option to simulate paired-end sequencing data without the need to run a second time ART_Illumina?

Thanks in advance.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant