usadellab / Trimmomatic

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No survival & Incorrect input reads #29

Open veedeeve opened 2 years ago

veedeeve commented 2 years ago

Tried to perform a trim on DRR099963. (renamed to fimi)

Input Code:

trimmomatic PE -phred33 fimi_R1.fastq fimi_R2.fastq \ fimi_R1_paired.fastq.gz fimi_R1_unpaired.fastq.gz \ fimi_R2_paired.fastq.gz fimi_R2_unpaired.fastq.gz \ LEADING:10 TRAILING:10 SLIDINGWINDOW:5:20 MINLEN:100

Output:

TrimmomaticPE: Started with arguments: -phred33 fimi_R1.fastq fimi_R2.fastq fimi_R1_paired.fastq.gz >fimi_R1_unpaired.fastq.gz fimi_R2_paired.fastq.gz >fimi_R2_unpaired.fastq.gz LEADING:10 TRAILING:10 >SLIDINGWINDOW:5:20 MINLEN:100 Multiple cores found: Using 4 threads Input Read Pairs: 195 Both Surviving: 0 (0.00%) Forward Only >Surviving: 0 (0.00%) Reverse Only Surviving: 195 (100.00%) >Dropped: 0 (0.00%)

Unsure on why the input read pairs are incorrect. A different person ran the same code, was able to get a complete trim. Picture1

Is there anything that I could check? Or is the code incorrect?