Some Question About Hi-C data Analysis
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2.5 years ago
Ashley ▴ 80

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?

next-gen HiC Juicer • 1.1k views
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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

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I mapped the fastq files using bwa. I don't want to map them again.

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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.

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Thanks a lot! Give my best wishes!

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