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Question: Some Question About Hi-C data Analysis
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Recently, I am learning HiC data analysis using Juicer. I have two types of samples. And each of them has 3 replicate. How can I merge them? Just merge .bam files and filter duplicates from PCR?

ADD COMMENTlink 16 months ago Ashley • 50
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My script is that

juicer.sh -d /$path/merge -s "MboI" -S final -p /$path/hg19.chrom.sizes -y /$path/hg19_MboI.txt -z /$path/bwaindex/hg19.fa -D /$path/juicer -t 5

Error: no fastq/ folder

ADD REPLYlink 16 months ago
Ashley
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• updated 16 months ago
ATpoint
17k
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I mapped the fastq files using bwa. I don't want to map them again.

ADD REPLYlink 16 months ago
Ashley
• 50
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Please use ADD COMMENTfor commenting on your toplevel question or directly edit the question itself. Also, please use the code button 101010 to indicate code.

ADD REPLYlink 16 months ago
ATpoint
17k
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Thanks a lot! Give my best wishes!

ADD REPLYlink 16 months ago
Ashley
• 50

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