PT  - JOURNAL ARTICLE
AU  - Tyler Garvin
AU  - Robert Aboukhalil
AU  - Jude Kendall
AU  - Timour Baslan
AU  - Gurinder S. Atwal
AU  - James Hicks
AU  - Michael Wigler
AU  - Michael C. Schatz
TI  - Interactive analysis and quality assessment of single-cell copy-number variations
AID  - 10.1101/011346
DP  - 2015 Jan 01
TA  - bioRxiv
PG  - 011346
4099  - http://biorxiv.org/content/early/2015/03/06/011346.short
4100  - http://biorxiv.org/content/early/2015/03/06/011346.full
AB  - We present an open-source visual-analytics web platform, Ginkgo (http://qb.cshl.edu/ginkgo), for the interactive analysis and quality assessment of single-cell copy-number alterations. Ginkgo automatically constructs copy-number profiles of individual cells from mapped reads, as well as constructing phylogenetic trees of related cells. We validate Ginkgo by reproducing the results of five major studies and examine the data characteristics of three commonly used single-cell amplification techniques to conclude DOP-PCR to be the most consistent for CNV analysis.