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?
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.