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Trimmomatic for MGIseq #38

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SergeyBaikal opened this issue Sep 19, 2022 · 0 comments
Open

Trimmomatic for MGIseq #38

SergeyBaikal opened this issue Sep 19, 2022 · 0 comments

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@SergeyBaikal
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SergeyBaikal commented Sep 19, 2022 •
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Dear developers, Could you clarify please Is this program suitable for MGI data (2*150)? As far as I understand, the ILLUMINACLIP parameter does not make sense.
java -jar trimmomatic-0.36.jar PE 1.fq.gz 2.fq.gz pairedPE_1.fq.gz singlePE_1.fq pairedPE_2.fq.gz singlePE_2.fq SLIDINGWINDOW:4:20 LEADING:3 TRAILING:3 HEADCROP:10 MINLEN:50 -threads 8

HEADCROP:10 this option is here to remove adapters.
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