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Discussion for Home page

2017-02-16T09:40:16.344000Z

the second order is:clumpify.sh in=M27454_1_clean.fq.gz in2=M27454_2_clean.fq.gz out=M27454_1_reorder.fq.gz out2=M27454_2_reorder.fq.gz reorder

Discussion for Home page

2017-02-16T09:33:27.973000Z

Dear Brian,
I have a big DNA_seq file (fastq.gz) and I want to denovo assembly, but the computer resource isn't enough. I want to remove duplicates and reorder by Clumpify, then split the one big file to many small files that the computer can do it. can you give me some suggestion?
The below is the order I used:
1. clumpify.sh in=M27454_1.fq.gz in2=M27454_2.fq.gz out=M27454_1_clean.fq.gz out2=M27454_2_clean.fq.gz dedupe subs=0
2. clumpify.sh in=M27454_1_clean.fq.gz in2=M27454_2_clean.fq.gz out=M27454_1_reorder.fq.gz out2=M27454_2_reorder.fq.gz
3. zcat M27454_1_reorder.fastq.gz | split -l 10000000 --additional-suffix=".fastq" --filter='gzip > $FILE.gz' - "XXX_"

Home modified by Brian Bushnell

2014-02-19T19:29:57.603000Z

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