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Updated README.md
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data/README.md

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@@ -12,8 +12,9 @@ for the size of the chromosome. Not all chromosomes named in this file
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need to be used, but all chromosomes used in the CNV analysis must be
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present (with their sizes) in this file.
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## Bin definitions The CNV analysis begins with counts of reads in
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genomic bins. The bins are defined by have roughly equal size, but
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## Bin definitions
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The CNV analysis begins with counts of reads in
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genomic bins. The bins are defined to have roughly equal size, but
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account for mappability, so the sizes vary slightly. We use files
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originally generated by scripts provided along with the publication:
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```

test/README.md

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## To test mapping simulated SMURF-seq reads to a small simulated genome
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A simulated reference genome `ref_sim.fa` has been indexed with BWA-MEM.
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`read_sim.fastq` contains simulated reads.
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`read_sim.fastq` contains simulated reads that align to `ref_sim.fa`.
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## To test mapping simulated reads to the human genome
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`read_hg.fastq` contains simulated reads from the human genome.
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`read_hg.fastq` contains simulated reads that align to the human genome.

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