Has anyone tried using sailfish to quantify copy number variation throughout a genome? Without diving into the materials and methods of the paper, it seems as though the idea is the same. I'd appreciate any insights.
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Sailfish is available at http://www.cs.cmu.edu/~ckingsf/software/sailfish/
Citation:
Sailfish: Alignment-free Isoform Quantification from RNA-seq Reads using Lightweight Algorithms
Rob Patro, Stephen M. Mount, and Carl Kingsford
manuscript submitted (2013)
http://arxiv.org/pdf/1308.3700.pdf
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