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nservant / HiC-Pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
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confusion with "sample" setting #489

Open Aannaw opened 2 years ago

Aannaw commented 2 years ago

Hello,Professor I have two pairs of hic raw data files from different DNA libraries with a sample，when I put all input files in a rawdata folder,should I put all two pairs of hic files in one sample1 folder or in two sample folders(sample1 and sample2)? Looking forward with your reply.

salvzzz commented 2 years ago

In the test dataset fastq files are divided by sample, so that every directory contains only R1/R2 fastq of the matching sample. Unless I misunderstood, I would say: split input files by sample.